Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 40 of 163
Found at i:13068470 original size:25 final size:23
Alignment explanation
Indices: 13068385--13068481 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 23
13068375 CAGCTTGTAT
13068385 GAGCTTACCGATTTCT-GCTCGTGA
1 GAGCTTA-CGA-TTCTAGCTCGTGA
13068409 GAGCTTACTGATTCTCAGCTCGT-A
1 GAGCTTAC-GATTCT-AGCTCGTGA
13068433 TGAGCTTACCGATTTCTAGCTCGTGA
1 -GAGCTTA-CGA-TTCTAGCTCGTGA
*
13068459 GAGCATTTCGATTCATAGCTCGT
1 GAGC-TTACGATTC-TAGCTCGT
13068482 ATTAGCACAC
Statistics
Matches: 63, Mismatches: 1, Indels: 17
0.78 0.01 0.21
Matches are distributed among these distances:
23 5 0.08
24 13 0.21
25 37 0.59
26 8 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.34
Consensus pattern (23 bp):
GAGCTTACGATTCTAGCTCGTGA
Found at i:13071556 original size:20 final size:19
Alignment explanation
Indices: 13071531--13071582 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
13071521 TGATAGTATT
13071531 TTATTAATTTAATATCAAA
1 TTATTAATTTAATATCAAA
*
13071550 GTTATT-ATCTTAATATTAAA
1 -TTATTAAT-TTAATATCAAA
13071570 -T-TTAATTTAATAT
1 TTATTAATTTAATAT
13071583 TTATATTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 9 0.31
18 3 0.10
19 2 0.07
20 15 0.52
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATTAATTTAATATCAAA
Found at i:13072593 original size:7 final size:7
Alignment explanation
Indices: 13072581--13072606 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13072571 TTTAAATTTA
13072581 AAAATAG
1 AAAATAG
13072588 AAAATAG
1 AAAATAG
13072595 AAAATAG
1 AAAATAG
13072602 AAAAT
1 AAAAT
13072607 TATAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (7 bp):
AAAATAG
Found at i:13072839 original size:23 final size:22
Alignment explanation
Indices: 13072787--13072840 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
13072777 TAAAAAAGGC
* **
13072787 TTAAAAATATTTTTTTATAAAA
1 TTAAAAATATATCATTATAAAA
*
13072809 TTATAAAATATATCATTATAAATT
1 TTA-AAAATATATCATTATAAA-A
13072833 TTAAAAAT
1 TTAAAAAT
13072841 TCAAAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.12
23 20 0.77
24 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TTAAAAATATATCATTATAAAA
Found at i:13080399 original size:25 final size:28
Alignment explanation
Indices: 13080362--13080416 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
13080352 TTTCTAAACT
*
13080362 TATACATGCA-TT-TTTATATAGTATATA
1 TATACAT-CATTTCTTTATATAATATATA
13080389 TATACAT-ATTTCTTTATATAATATATA
1 TATACATCATTTCTTTATATAATATATA
13080416 T
1 T
13080417 GTGTTCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 1 0.04
26 2 0.08
27 22 0.88
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (28 bp):
TATACATCATTTCTTTATATAATATATA
Found at i:13083943 original size:17 final size:17
Alignment explanation
Indices: 13083921--13083954 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13083911 CCCTCCTGTA
13083921 GAAAGATTACAAATACT
1 GAAAGATTACAAATACT
13083938 GAAAGATTACAAATACT
1 GAAAGATTACAAATACT
13083955 CCAATTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
GAAAGATTACAAATACT
Found at i:13085846 original size:27 final size:26
Alignment explanation
Indices: 13085816--13085867 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
13085806 TTTTCCAGAA
* *
13085816 CTTCTCTAAACGTTGCCATTTGTTTTT
1 CTTCTCTAAACCTTCCCATTT-TTTTT
*
13085843 CTTCTCTCAACCTTCCCATTTTTTT
1 CTTCTCTAAACCTTCCCATTTTTTT
13085868 CTCGAATGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.13, C:0.29, G:0.06, T:0.52
Consensus pattern (26 bp):
CTTCTCTAAACCTTCCCATTTTTTTT
Found at i:13086050 original size:43 final size:43
Alignment explanation
Indices: 13086002--13086131 Score: 260
Period size: 43 Copynumber: 3.0 Consensus size: 43
13085992 AAACTGGTAA
13086002 ACCTCCATTCGACCTCTCTGCTTTCTTCTTTGATTTCCATATC
1 ACCTCCATTCGACCTCTCTGCTTTCTTCTTTGATTTCCATATC
13086045 ACCTCCATTCGACCTCTCTGCTTTCTTCTTTGATTTCCATATC
1 ACCTCCATTCGACCTCTCTGCTTTCTTCTTTGATTTCCATATC
13086088 ACCTCCATTCGACCTCTCTGCTTTCTTCTTTGATTTCCATATC
1 ACCTCCATTCGACCTCTCTGCTTTCTTCTTTGATTTCCATATC
13086131 A
1 A
13086132 ATGTGAGAAT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.15, C:0.35, G:0.07, T:0.44
Consensus pattern (43 bp):
ACCTCCATTCGACCTCTCTGCTTTCTTCTTTGATTTCCATATC
Found at i:13089130 original size:22 final size:22
Alignment explanation
Indices: 13089105--13089176 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
13089095 CAATTTGTAT
13089105 GTAATATTTTTTATTTTATTGA
1 GTAATATTTTTTATTTTATTGA
**
13089127 GTAATA--TTCAATTTGTA-T--
1 GTAATATTTTTTATTT-TATTGA
13089145 GTAATATTTTTTATTTTATTGA
1 GTAATATTTTTTATTTTATTGA
13089167 GTAATATTTT
1 GTAATATTTT
13089177 CTCGTATGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
18 6 0.15
19 2 0.05
20 14 0.35
21 2 0.05
22 16 0.40
ACGTcount: A:0.29, C:0.01, G:0.10, T:0.60
Consensus pattern (22 bp):
GTAATATTTTTTATTTTATTGA
Found at i:13089138 original size:40 final size:40
Alignment explanation
Indices: 13089094--13089174 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
13089084 TATATGTATA
13089094 TCAATTTGTATGTAATATTTTTTATTTTATTGAGTAATAT
1 TCAATTTGTATGTAATATTTTTTATTTTATTGAGTAATAT
13089134 TCAATTTGTATGTAATATTTTTTATTTTATTGAGTAATAT
1 TCAATTTGTATGTAATATTTTTTATTTTATTGAGTAATAT
13089174 T
1 T
13089175 TTCTCGTATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (40 bp):
TCAATTTGTATGTAATATTTTTTATTTTATTGAGTAATAT
Found at i:13089176 original size:20 final size:20
Alignment explanation
Indices: 13089113--13089176 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
13089103 ATGTAATATT
13089113 TTTTATTTTATTGAGTAATA
1 TTTTATTTTATTGAGTAATA
**
13089133 TTCAATTTGTA-T--GTAATA
1 TTTTATTT-TATTGAGTAATA
13089151 TTTTTTATTTTATTGAGTAATA
1 --TTTTATTTTATTGAGTAATA
13089173 TTTT
1 TTTT
13089177 CTCGTATGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
18 6 0.18
19 2 0.06
20 18 0.53
21 2 0.06
22 6 0.18
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.61
Consensus pattern (20 bp):
TTTTATTTTATTGAGTAATA
Found at i:13092275 original size:58 final size:57
Alignment explanation
Indices: 13092154--13092355 Score: 200
Period size: 58 Copynumber: 3.5 Consensus size: 57
13092144 CGCGAGTAGA
* * * **
13092154 TTTATACTTGAGA-AAATTTCAAAGATAACCAACTGGGGATAAAG-TCCACGAGCTA-T
1 TTTATACTTAAGAGAAATTTGAAAGATAACCAGCT-GGGATGTAGATCCACGAGC-AGT
* *
13092210 TTCATACTTAAGAGAAATTTGAAAGATAACTAGCTAGGGATGTAGATCCACGAGCAGT
1 TTTATACTTAAGAGAAATTTGAAAGATAACCAGCT-GGGATGTAGATCCACGAGCAGT
* * * *
13092268 TTTATACTTAAGAAAAATTTGAAGGATAACCAGCTGAGGATGT-GAATCCGCGAGCTGT
1 TTTATACTTAAGAGAAATTTGAAAGATAACCAGCTG-GGATGTAG-ATCCACGAGCAGT
13092326 TTTATACTT--GAGAAACTTTTGAAAGATAAC
1 TTTATACTTAAGAGAAA--TTTGAAAGATAAC
13092356 ATACTGGGAG
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
56 16 0.13
57 28 0.23
58 79 0.64
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (57 bp):
TTTATACTTAAGAGAAATTTGAAAGATAACCAGCTGGGATGTAGATCCACGAGCAGT
Found at i:13092546 original size:68 final size:69
Alignment explanation
Indices: 13092377--13092639 Score: 208
Period size: 69 Copynumber: 3.7 Consensus size: 69
13092367 TCAATTTTGG
* * * * * *
13092377 CTAACTATGTTGGATGTTGCGATTTTTATCCTAAGAGCCTTAATATGACAGCTGGGAGCTTAGCT
1 CTAACTATGTTGAAGGCTGCGATTTTTATCCTGAGAGCCTTAATATGACAACTAGGAGCTTAGCT
*
13092442 CTCG
66 CTCA
* * * *
13092446 CTAACTGTGTTGAAGGCTGCGACTTTTATCCTGTGAGCCTTAATATGACAACTAGG-GCTTTGCT
1 CTAACTATGTTGAAGGCTGCGATTTTTATCCTGAGAGCCTTAATATGACAACTAGGAGCTTAGCT
*
13092510 TTCA
66 CTCA
* * * * * *
13092514 CTAACTATGTTCG-AGGCTGTGGTTTTTATCCTGCGAGCCTTAATACGATTTTTATCAATTGGGA
1 CTAACTATGTT-GAAGGCTGCGATTTTTATCCTGAGAGCCTTAAT---A---TGA-CAACTAGGA
* * *
13092578 GCTTTGCTTTCG
58 GCTTAGCTCTCA
* * *
13092590 CTAACTGTGTTGGAGGTTGCGATTTTTATCCTGCA-AGCCTTAATATGACA
1 CTAACTATGTTGAAGGCTGCGATTTTTATCCTG-AGAGCCTTAATATGACA
13092640 TAAATGTTGT
Statistics
Matches: 156, Mismatches: 27, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
68 46 0.29
69 50 0.32
70 2 0.01
71 1 0.01
73 1 0.01
74 2 0.01
75 7 0.04
76 47 0.30
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (69 bp):
CTAACTATGTTGAAGGCTGCGATTTTTATCCTGAGAGCCTTAATATGACAACTAGGAGCTTAGCT
CTCA
Found at i:13094799 original size:13 final size:13
Alignment explanation
Indices: 13094781--13094806 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13094771 ATAGGGCCAA
13094781 AATAATTTTCATG
1 AATAATTTTCATG
13094794 AATAATTTTCATG
1 AATAATTTTCATG
13094807 TTTTTTTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
AATAATTTTCATG
Found at i:13095531 original size:22 final size:22
Alignment explanation
Indices: 13095499--13095541 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13095489 GTTCCCCGGA
*
13095499 CACACGGGCGTGTGCCTCCTTT
1 CACACGAGCGTGTGCCTCCTTT
*
13095521 CACACGAGCGTGTGTCTCCTT
1 CACACGAGCGTGTGCCTCCTT
13095542 CGCATAGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.35, G:0.26, T:0.28
Consensus pattern (22 bp):
CACACGAGCGTGTGCCTCCTTT
Found at i:13099274 original size:14 final size:13
Alignment explanation
Indices: 13099251--13099289 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
13099241 CATATGCTCT
13099251 CTTTTTTTCTTTC
1 CTTTTTTTCTTTC
*
13099264 TTTTCTTTTCTTTTC
1 CTTT-TTTTC-TTTC
13099279 CTTTTTTTCTT
1 CTTTTTTTCTT
13099290 GAGCATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.23
14 10 0.45
15 7 0.32
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
CTTTTTTTCTTTC
Found at i:13103653 original size:16 final size:16
Alignment explanation
Indices: 13103632--13103665 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
13103622 AATAAGGAAA
13103632 ATGTATATAAATGTAT
1 ATGTATATAAATGTAT
*
13103648 ATGTATATACATGTAT
1 ATGTATATAAATGTAT
13103664 AT
1 AT
13103666 AAAAATTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
ATGTATATAAATGTAT
Found at i:13110260 original size:28 final size:28
Alignment explanation
Indices: 13110218--13110335 Score: 130
Period size: 28 Copynumber: 4.2 Consensus size: 28
13110208 CAGTGACAGT
*
13110218 ACAGTGTGGGCCTTAGCCCAATACAATA
1 ACAGTGTAGGCCTTAGCCCAATACAATA
* * *
13110246 ACAGCGTAGACCTTAGCCTAATACAATA
1 ACAGTGTAGGCCTTAGCCCAATACAATA
* * *
13110274 ACAGTGTGGGCCTTATCCCAATATAGA-A
1 ACAGTGTAGGCCTTAGCCCAATACA-ATA
* *
13110302 TCAGTGTAGGCCTTAGCCCAATACAGTA
1 ACAGTGTAGGCCTTAGCCCAATACAATA
*
13110330 ATAGTG
1 ACAGTG
13110336 CAGTGCAATA
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
28 70 0.99
29 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (28 bp):
ACAGTGTAGGCCTTAGCCCAATACAATA
Found at i:13110316 original size:56 final size:56
Alignment explanation
Indices: 13110218--13110335 Score: 148
Period size: 56 Copynumber: 2.1 Consensus size: 56
13110208 CAGTGACAGT
*
13110218 ACAGTGTGGGCCTTAGCCCAATACAATAACAGCGTAGACCTTAGCCTAATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATAACAGCGTAGACCTTAGCCCAATACAATA
* * * * * *
13110274 ACAGTGTGGGCCTTATCCCAATATAGA-ATCAGTGTAGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACA-ATAACAGCGTAGACCTTAGCCCAATACAATA
*
13110330 ATAGTG
1 ACAGTG
13110336 CAGTGCAATA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
56 52 0.98
57 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (56 bp):
ACAGTGTGGGCCTTAGCCCAATACAATAACAGCGTAGACCTTAGCCCAATACAATA
Found at i:13110515 original size:26 final size:26
Alignment explanation
Indices: 13110445--13110517 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
13110435 AATATTGCAG
* * *
13110445 CAAAGCTGCCAGTAATAGCATCGCAG
1 CAAAGCTGCCAGTAACAGTATCGCAA
*
13110471 CAAAGCTGCCAGTATCAGTATCGCAA
1 CAAAGCTGCCAGTAACAGTATCGCAA
13110497 CAAAGCTGCCAGTAACAGTAT
1 CAAAGCTGCCAGTAACAGTAT
13110518 ATGTGGCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.18
Consensus pattern (26 bp):
CAAAGCTGCCAGTAACAGTATCGCAA
Found at i:13110771 original size:27 final size:27
Alignment explanation
Indices: 13110741--13110792 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
13110731 ATCTCCTAGG
13110741 GGTATAAC-AGTCATTTTACCCTATAAA
1 GGTATAACGA-TCATTTTACCCTATAAA
**
13110768 GGTATTTCGATCATTTTACCCTATA
1 GGTATAACGATCATTTTACCCTATA
13110793 GGGGTATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (27 bp):
GGTATAACGATCATTTTACCCTATAAA
Found at i:13110798 original size:27 final size:26
Alignment explanation
Indices: 13110751--13111078 Score: 322
Period size: 27 Copynumber: 12.2 Consensus size: 26
13110741 GGTATAACAG
**
13110751 TCATTTTACCCTATAAAGGTATTTCGA
1 TCATTTTACCCTAT-GGGGTATTTCGA
*
13110778 TCATTTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
* *
13110805 TTATTTTACCCTATGTGGGTA-TTCGG
1 TCATTTTACCCTATG-GGGTATTTCGA
13110831 TCATTTTACCCTATGGGAGTATTTCGA
1 TCATTTTACCCTATGGG-GTATTTCGA
* *
13110858 TCATTTGACCCTATAGGGGTATTTCGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
* *
13110885 TCATTTTATCCTATGAGGGTATTT-TA
1 TCATTTTACCCTATG-GGGTATTTCGA
* *
13110911 GTTATTTTACCCTATGAGGGTATTTCGG
1 -TCATTTTACCCTATG-GGGTATTTCGA
13110939 TCATTTTACCCTATGGGGGTATTTC-A
1 TCATTTTACCCTAT-GGGGTATTTCGA
* *
13110965 GTCATTTTAACCTATAGGGATATTTCGA
1 -TCATTTTACCCTAT-GGGGTATTTCGA
*
13110993 TCATTTTGCCCTATGAGGGTATTTC-A
1 TCATTTTACCCTATG-GGGTATTTCGA
* * *
13111019 GTCATTTTACCTTGTGGGGTAATTCGA
1 -TCATTTTACCCTATGGGGTATTTCGA
* * *
13111046 TCATTTTACCATGTGGGGGTAATTCGA
1 TCATTTTACCCTAT-GGGGTATTTCGA
13111073 TCATTT
1 TCATTT
13111079 ATTGACCTCT
Statistics
Matches: 258, Mismatches: 29, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.01
26 47 0.18
27 204 0.79
28 5 0.02
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.42
Consensus pattern (26 bp):
TCATTTTACCCTATGGGGTATTTCGA
Found at i:13110841 original size:80 final size:80
Alignment explanation
Indices: 13110724--13111078 Score: 369
Period size: 81 Copynumber: 4.4 Consensus size: 80
13110714 GCCATAACAA
** * * *
13110724 TCATTTTATCTCCTA-GGGGTATAACAGTCATTTTACCCTATAAAGGTATTTCGATCATTTTACC
1 TCATTTTA-C-CCTATGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACC
13110788 CTATAGGGGTATTTCGG
64 CTATAGGGGTATTTCGG
* *
13110805 TTATTTTACCCTATGTGGGTA-TTCGGTCATTTTACCCTATG-GGAGTATTTCGATCATTTGACC
1 TCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTATGAGG-GTATTTCGATCATTTTACC
13110868 CTATAGGGGTATTTCGG
64 CTATAGGGGTATTTCGG
* ** * *
13110885 TCATTTTATCCTATGAGGGTATTTTAGTTATTTTACCCTATGAGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCC
* *
13110950 TATGGGGGTATTTCAG
65 TATAGGGGTATTTCGG
* * * *
13110966 TCATTTTAACCTATAGGGATATTTCGATCATTTTGCCCTATGAGGGTATTTC-AGTCATTTTACC
1 TCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGA-TCATTTTACC
* * * *
13111030 TTGT-GGGGTAATTCGA
64 CTATAGGGGTATTTCGG
* * * *
13111046 TCATTTTACCATGTGGGGGTAATTCGATCATTT
1 TCATTTTACCCTAT-GGGGTATTTCGGTCATTT
13111079 ATTGACCTCT
Statistics
Matches: 231, Mismatches: 36, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
79 5 0.02
80 107 0.46
81 116 0.50
82 3 0.01
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (80 bp):
TCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCT
ATAGGGGTATTTCGG
Found at i:13113994 original size:5 final size:5
Alignment explanation
Indices: 13113984--13114011 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13113974 ATGTCCTTAT
13113984 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA
13114012 TTAAGCCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:13114281 original size:20 final size:20
Alignment explanation
Indices: 13114253--13114296 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
13114243 AATTAAAAAT
13114253 TATAAAATTATAAAATTATA
1 TATAAAATTATAAAATTATA
* *
13114273 TATATAATTGTAAAATTATA
1 TATAAAATTATAAAATTATA
13114293 -ATAA
1 TATAA
13114297 TTAATCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TATAAAATTATAAAATTATA
Found at i:13114289 original size:8 final size:8
Alignment explanation
Indices: 13114241--13114272 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
13114231 AATTTTAAAA
13114241 AAAATTA-
1 AAAATTAT
13114248 AAAATTAT
1 AAAATTAT
13114256 AAAATTAT
1 AAAATTAT
13114264 AAAATTAT
1 AAAATTAT
13114272 A
1 A
13114273 TATATAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAATTAT
Found at i:13116679 original size:24 final size:24
Alignment explanation
Indices: 13116648--13116703 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
13116638 TGAATTTTCA
13116648 AAAT-CATATTCATAATTAGATAC
1 AAATACATATTCATAATTAGATAC
* *
13116671 AGATACATATTCATAATTAGATGC
1 AAATACATATTCATAATTAGATAC
13116695 AAATACATA
1 AAATACATA
13116704 CTTAGGTCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.32
Consensus pattern (24 bp):
AAATACATATTCATAATTAGATAC
Found at i:13119225 original size:25 final size:26
Alignment explanation
Indices: 13119197--13119247 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
13119187 ATACAAAGAA
13119197 AGTTAAGAAATTT-AGGGTGTTACAT
1 AGTTAAGAAATTTAAGGGTGTTACAT
13119222 AGTTAAGAAATTTAAGGGTGTTACAT
1 AGTTAAGAAATTTAAGGGTGTTACAT
13119248 TCATACTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (26 bp):
AGTTAAGAAATTTAAGGGTGTTACAT
Found at i:13128873 original size:44 final size:47
Alignment explanation
Indices: 13128821--13128930 Score: 118
Period size: 49 Copynumber: 2.4 Consensus size: 47
13128811 TCCATATAGA
* *
13128821 ACTACACTT-ATTTATTT-TATT-TTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCATCTATTTATATTATTAGAATAAGGTGTTTCAACCTT
* * *
13128865 ATTACACTTCCTCTATTTGATATTGATTAGAATTAGGTGTTTCAACCTT
1 ACTACACTTCATCTATTT-ATATT-ATTAGAATAAGGTGTTTCAACCTT
* *
13128914 ACTACACTACTTCTATT
1 ACTACACTTCATCTATT
13128931 AGAATATGGT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
44 8 0.15
45 6 0.11
47 4 0.08
49 35 0.66
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.46
Consensus pattern (47 bp):
ACTACACTTCATCTATTTATATTATTAGAATAAGGTGTTTCAACCTT
Found at i:13131326 original size:45 final size:43
Alignment explanation
Indices: 13131277--13131460 Score: 196
Period size: 45 Copynumber: 4.2 Consensus size: 43
13131267 CTCGTGCAAA
*
13131277 ACCACGTCTGGGACAATGGCATCGATTTATGTGATTACGTGTAAG
1 ACCACGTCTGGGACAATGGCATCGA--TATGTGATTACATGTAAG
* *
13131322 ACCACGTCTGGGACGATGGCATCGATATATGTGATTATATGTAAG
1 ACCACGTCTGGGACAATGGCATCG--ATATGTGATTACATGTAAG
* * * * *
13131367 ACCATGTCTAGGACATTGGCATCG-TATTTGATT-CGTGTAAG
1 ACCACGTCTGGGACAATGGCATCGATATGTGATTACATGTAAG
* *
13131408 ACC-CTGTCTGGGACAGTGGCATCGATATGAGA-TAGCATGTAAG
1 ACCAC-GTCTGGGACAATGGCATCGATATGTGATTA-CATGTAAG
13131451 ACCACGTCTG
1 ACCACGTCTG
13131461 AGACGTTGGC
Statistics
Matches: 116, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
41 27 0.23
42 13 0.11
43 15 0.13
44 1 0.01
45 59 0.51
47 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
ACCACGTCTGGGACAATGGCATCGATATGTGATTACATGTAAG
Found at i:13147562 original size:7 final size:7
Alignment explanation
Indices: 13147550--13147585 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
13147540 TAAAAAAAAA
13147550 TTAATTT
1 TTAATTT
13147557 TTAATTT
1 TTAATTT
*
13147564 CTAATTT
1 TTAATTT
13147571 TTAATTT
1 TTAATTT
13147578 TTAATTT
1 TTAATTT
13147585 T
1 T
13147586 CTTTCCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (7 bp):
TTAATTT
Found at i:13148526 original size:231 final size:231
Alignment explanation
Indices: 13148153--13148626 Score: 648
Period size: 231 Copynumber: 2.1 Consensus size: 231
13148143 GATCTCCAAT
* * *
13148153 TTAGTGTAGAACAATGTGAGCAGCAATGTAAAGAGTTTAAGTTGATGGAGAAAGTGGTAAATGAT
1 TTAGTGTAAAACAATGTGAGCAGCAATGTAAAGAGTTTAAGTTGATGGAGAAAGTAGTAAAAGAT
* * * * * * *
13148218 AAGTTGGGGGAAATTGGGTTAAAAGAGAATGATTTGGAGAATCGCTTGAGTGATTTTGTGTTGAG
66 AAGTTGGAGGAAATTGGGGTAAAAGAGAATGATTTGGAGAATCGCTTGAGCGAGTATGAGTTGAA
* * **
13148283 AGAACAACAATTTGGGTTGAAAGAGAAGAGTTTTGAGAAGCGGTGTATGGAGTTTGAGTTGGAAG
131 AGAACAACAATTTGAGTTGAAAGAGAAGAGTTTTGAGAAGCGGTATATGGAGTTTGAGAGGGAAG
**
13148348 AAAAGGCTTTGGAAGAACGTCGCAGAGATCTTGAAG
196 AAAAGGCTTTCAAAGAACGTCGCAGAGATCTTGAAG
* *
13148384 TTAGTGTAAAACAATGTGAGCGGCAATGTGAAGAGTTTAAGTTGATGGAGAAA-TCAGTAAAAGA
1 TTAGTGTAAAACAATGTGAGCAGCAATGTAAAGAGTTTAAGTTGATGGAGAAAGT-AGTAAAAGA
* *
13148448 TAAGTTGGAGGAAGTTGGGGTGAAAGAGAAAT-ATTTGGAGAAGT-GCTTGAGCGAGTATGAGTT
65 TAAGTTGGAGGAAATTGGGGTAAAAGAG-AATGATTTGGAGAA-TCGCTTGAGCGAGTATGAGTT
** * *
13148511 GAAAGAAGTACAATTTGAGTTGAAAGAGAAGAGTTTTGTGAAGCGTTATATGGAGTTTGAGAGGG
128 GAAAGAACAACAATTTGAGTTGAAAGAGAAGAGTTTTGAGAAGCGGTATATGGAGTTTGAGAGGG
* * *
13148576 AAGAGAAGGCTTTCAAAGAACGTTGTAGAGATCTTGAAG
193 AAGAAAAGGCTTTCAAAGAACGTCGCAGAGATCTTGAAG
*
13148615 TTAATGTAAAAC
1 TTAGTGTAAAAC
13148627 TGTATGAGCA
Statistics
Matches: 212, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
230 1 0.00
231 207 0.98
232 4 0.02
ACGTcount: A:0.36, C:0.05, G:0.32, T:0.27
Consensus pattern (231 bp):
TTAGTGTAAAACAATGTGAGCAGCAATGTAAAGAGTTTAAGTTGATGGAGAAAGTAGTAAAAGAT
AAGTTGGAGGAAATTGGGGTAAAAGAGAATGATTTGGAGAATCGCTTGAGCGAGTATGAGTTGAA
AGAACAACAATTTGAGTTGAAAGAGAAGAGTTTTGAGAAGCGGTATATGGAGTTTGAGAGGGAAG
AAAAGGCTTTCAAAGAACGTCGCAGAGATCTTGAAG
Found at i:13148706 original size:231 final size:231
Alignment explanation
Indices: 13148239--13148706 Score: 500
Period size: 231 Copynumber: 2.0 Consensus size: 231
13148229 AATTGGGTTA
* * * * * *
13148239 AAAGAGAATGATTTGGAGAATCGCTTGAGTGATTTTGTGTTGAGAGAACAACAATTTGGGTTGAA
1 AAAGAGAATGATTTGGAGAATCGCTTGAGCGAGTATGAGTTGAAAGAACAACAATTTGAGTTGAA
* ** **
13148304 AGAGAAGAGTTTTGAGAAGCGGTGTATGGAGTTTGAGTTGGAAGAAAAGGCTTTGGAAGAACGTC
66 AGAGAAGAGTTTTGAGAAGCGGTATATGGAGTTTGAGAGGGAAGAAAAGGCTTTCAAAGAACGTC
* * * * * * **
13148369 GCAGAGATCTTGAAGTTAGTGTAAAACAATGTGAGCGGCAATGTGAAGAGTTTAAGTTGATGGAG
131 GCAGAGATCTTGAAGTTAATGTAAAACAATATGAGCAGAAATATGAAGAGTTGAAGTTGACAGAG
* * ***
13148434 AAATCAGTAAAAGATAAGTTGGAGGAAGTTGGGGTG
196 AAATCAGTAAAAGATAAGTTGGAAGAAATTAAAGTG
**
13148470 AAAGAGAAAT-ATTTGGAGAAGT-GCTTGAGCGAGTATGAGTTGAAAGAAGTACAATTTGAGTTG
1 AAAGAG-AATGATTTGGAGAA-TCGCTTGAGCGAGTATGAGTTGAAAGAACAACAATTTGAGTTG
* * *
13148533 AAAGAGAAGAGTTTTGTGAAGCGTTATATGGAGTTTGAGAGGGAAGAGAAGGCTTTCAAAGAACG
64 AAAGAGAAGAGTTTTGAGAAGCGGTATATGGAGTTTGAGAGGGAAGAAAAGGCTTTCAAAGAACG
* * **
13148598 TTGTAGAGATCTTGAAGTTAATGTAAAACTGTATGAGCAGAAATAT-AAGAGGCTTGAAG-TGAC
129 TCGCAGAGATCTTGAAGTTAATGTAAAACAATATGAGCAGAAATATGAAGA-G-TTGAAGTTGAC
** *
13148661 AGAGAAATGGGTGCAAAA-A-CAGTTGGAAGAAATTAAAAG-G
192 AGAGAAATCAGT--AAAAGATAAGTTGGAAGAAATT-AAAGTG
13148701 AAAGAG
1 AAAGAG
13148707 GAGGAATTTG
Statistics
Matches: 194, Mismatches: 36, Indels: 14
0.80 0.15 0.06
Matches are distributed among these distances:
230 4 0.02
231 175 0.90
232 11 0.06
233 4 0.02
ACGTcount: A:0.37, C:0.06, G:0.32, T:0.25
Consensus pattern (231 bp):
AAAGAGAATGATTTGGAGAATCGCTTGAGCGAGTATGAGTTGAAAGAACAACAATTTGAGTTGAA
AGAGAAGAGTTTTGAGAAGCGGTATATGGAGTTTGAGAGGGAAGAAAAGGCTTTCAAAGAACGTC
GCAGAGATCTTGAAGTTAATGTAAAACAATATGAGCAGAAATATGAAGAGTTGAAGTTGACAGAG
AAATCAGTAAAAGATAAGTTGGAAGAAATTAAAGTG
Found at i:13152887 original size:127 final size:128
Alignment explanation
Indices: 13152740--13152994 Score: 503
Period size: 127 Copynumber: 2.0 Consensus size: 128
13152730 TACTTCTTAA
13152740 ACCGTTTATTTTTAATATAATTATTTTTTAATTTGTAAAATTTCAATAACCTAATTTTTATTAAA
1 ACCGTTTATTTTTAATATAATTATTTTTTAATTTGTAAAATTTCAATAACCTAATTTTTATTAAA
13152805 TCAATTATTTATCCAAACAAGTAATTACAAAGGGTAGCATTTTGAATTGATGAATTTTAATGT
66 TCAATTATTTATCCAAACAAGTAATTACAAAGGGTAGCATTTTGAATTGATGAATTTTAATGT
13152868 ACCGTTTA-TTTTAATATAATTATTTTTTAATTTGTAAAATTTCAATAACCTAATTTTTATTAAA
1 ACCGTTTATTTTTAATATAATTATTTTTTAATTTGTAAAATTTCAATAACCTAATTTTTATTAAA
13152932 TCAATTATTTATCCAAACAAGTAATTACAAAGGGTAGCATTTTGAATTGATGAATTTTAATGT
66 TCAATTATTTATCCAAACAAGTAATTACAAAGGGTAGCATTTTGAATTGATGAATTTTAATGT
13152995 GCTAGCATTT
Statistics
Matches: 127, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
127 119 0.94
128 8 0.06
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (128 bp):
ACCGTTTATTTTTAATATAATTATTTTTTAATTTGTAAAATTTCAATAACCTAATTTTTATTAAA
TCAATTATTTATCCAAACAAGTAATTACAAAGGGTAGCATTTTGAATTGATGAATTTTAATGT
Found at i:13163623 original size:24 final size:23
Alignment explanation
Indices: 13163591--13163636 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
13163581 ATAATAAATT
*
13163591 ATATTTAAATAATTTAACATAATG
1 ATATATAAATAATTTAA-ATAATG
*
13163615 ATATATAAATTATTTAAATAAT
1 ATATATAAATAATTTAAATAAT
13163637 TTAATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATATAAATAATTTAAATAATG
Found at i:13163634 original size:33 final size:32
Alignment explanation
Indices: 13163518--13163664 Score: 158
Period size: 31 Copynumber: 4.7 Consensus size: 32
13163508 TGTAAAATGG
*
13163518 ATGATATATAAATATTTTAAA-AATTAAATATA
1 ATGATATATAAATA-TTTAAATAATTTAATATA
* * * *
13163550 ATAATAAAT-AAGATTTAAATGATTTAATATA
1 ATGATATATAAATATTTAAATAATTTAATATA
* * * *
13163581 ATAATAAAT-TATATTTAAATAATTTAACATA
1 ATGATATATAAATATTTAAATAATTTAATATA
13163612 ATGATATATAAATTATTTAAATAATTTAATATA
1 ATGATATATAAA-TATTTAAATAATTTAATATA
*
13163645 ATGATATATAAA-ATATAAAT
1 ATGATATATAAATATTTAAAT
13163665 TAATCTATTT
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
30 6 0.06
31 53 0.54
32 8 0.08
33 31 0.32
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (32 bp):
ATGATATATAAATATTTAAATAATTTAATATA
Found at i:13168723 original size:17 final size:18
Alignment explanation
Indices: 13168698--13168733 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
13168688 TTAAAATAAA
*
13168698 TTTTCTTTAATT-AATAT
1 TTTTATTTAATTAAATAT
13168715 TTTTATTTAATTAAATAT
1 TTTTATTTAATTAAATAT
13168733 T
1 T
13168734 GAGTACTAAC
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:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTATTTAATTAAATAT
Found at i:13172394 original size:21 final size:21
Alignment explanation
Indices: 13172370--13172424 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
13172360 ACCGCTGTTC
* *
13172370 CCAATCTCACTGCTACAGTAT
1 CCAATCTCACCGCTACAGTAA
13172391 CCAATCTCACCGCTACAGTAA
1 CCAATCTCACCGCTACAGTAA
*
13172412 CTAATCTCACCGC
1 CCAATCTCACCGC
13172425 CACCGCTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.38, G:0.09, T:0.24
Consensus pattern (21 bp):
CCAATCTCACCGCTACAGTAA
Found at i:13177628 original size:29 final size:29
Alignment explanation
Indices: 13177582--13177730 Score: 255
Period size: 29 Copynumber: 5.1 Consensus size: 29
13177572 NNNNNNNNNN
13177582 AAATACACTACATATATTTTTTATTTTTA
1 AAATACACTACATATATTTTTTATTTTTA
*
13177611 AAATACACTACATTTATTTTTTATTTTTA
1 AAATACACTACATATATTTTTTATTTTTA
* *
13177640 AAATATAATACATATATTTTTTATTTTT-
1 AAATACACTACATATATTTTTTATTTTTA
13177668 AAATACACTACATATATTTATTTATTTTTA
1 AAATACACTACATATATTT-TTTATTTTTA
13177698 AAATACACTACATATATTTTTTATTTTTA
1 AAATACACTACATATATTTTTTATTTTTA
13177727 AAAT
1 AAAT
13177731 TTTAAATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
28 17 0.15
29 76 0.68
30 19 0.17
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (29 bp):
AAATACACTACATATATTTTTTATTTTTA
Found at i:13177819 original size:6 final size:6
Alignment explanation
Indices: 13177802--13177866 Score: 69
Period size: 6 Copynumber: 10.5 Consensus size: 6
13177792 TGTGCCCTCC
* * *
13177802 TCCCATT TCCCAT TCCCA- TGCAAT ACCCAT TCCCATT TCCCAT TCCCAT
1 TCCCA-T TCCCAT TCCCAT TCCCAT TCCCAT TCCCA-T TCCCAT TCCCAT
13177851 TCCCATT TCCCAT TCC
1 TCCCA-T TCCCAT TCC
13177867 ACCGTGCCCT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
5 3 0.06
6 29 0.59
7 17 0.35
ACGTcount: A:0.18, C:0.46, G:0.02, T:0.34
Consensus pattern (6 bp):
TCCCAT
Found at i:13177820 original size:13 final size:13
Alignment explanation
Indices: 13177802--13177902 Score: 68
Period size: 13 Copynumber: 7.8 Consensus size: 13
13177792 TGTGCCCTCC
13177802 TCCCATTTCCCAT
1 TCCCATTTCCCAT
* *
13177815 TCCCA--TGCAAT
1 TCCCATTTCCCAT
*
13177826 ACCCA-TTCCCATT
1 TCCCATTTCCCA-T
13177839 TCCCA-TTCCCAT
1 TCCCATTTCCCAT
13177851 TCCCATTTCCCAT
1 TCCCATTTCCCAT
** *
13177864 TCCACCGTGCCC-T
1 TCC-CATTTCCCAT
13177877 CCTCCCATTTCCCAT
1 --TCCCATTTCCCAT
*
13177892 TCCCATCTCCC
1 TCCCATTTCCC
13177903 CTCTTCCATC
Statistics
Matches: 68, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
11 8 0.12
12 9 0.13
13 37 0.54
14 10 0.15
15 4 0.06
ACGTcount: A:0.16, C:0.50, G:0.03, T:0.32
Consensus pattern (13 bp):
TCCCATTTCCCAT
Found at i:13177851 original size:19 final size:19
Alignment explanation
Indices: 13177827--13177866 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
13177817 CCATGCAATA
13177827 CCCATTCCCATTTCCCATT
1 CCCATTCCCATTTCCCATT
13177846 CCCATTCCCATTTCCCATT
1 CCCATTCCCATTTCCCATT
13177865 CC
1 CC
13177867 ACCGTGCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.50, G:0.00, T:0.35
Consensus pattern (19 bp):
CCCATTCCCATTTCCCATT
Found at i:13177886 original size:28 final size:28
Alignment explanation
Indices: 13177851--13177951 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
13177841 CCATTCCCAT
13177851 TCCCATTTCCCATTCCACCGTGCCCTCC
1 TCCCATTTCCCATTCCACCGTGCCCTCC
* * *
13177879 TCCCATTTCCCATTCCCATC-TCCCCTCT
1 TCCCATTTCCCATT-CCACCGTGCCCTCC
* *
13177907 TCCATCGATTCCCCTTTTCCACCGTGCCCTCC
1 TCC--C-ATTTCCC-ATTCCACCGTGCCCTCC
13177939 TCCCATTTCCCAT
1 TCCCATTTCCCAT
13177952 CCCCATGCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
28 24 0.42
29 10 0.18
30 2 0.04
31 10 0.18
32 11 0.19
ACGTcount: A:0.11, C:0.51, G:0.05, T:0.33
Consensus pattern (28 bp):
TCCCATTTCCCATTCCACCGTGCCCTCC
Found at i:13177893 original size:60 final size:60
Alignment explanation
Indices: 13177827--13177987 Score: 175
Period size: 60 Copynumber: 2.6 Consensus size: 60
13177817 CCATGCAATA
13177827 CCCATTCCCATTTCCCATTCCCATTCCCATTTCCCATTCCACCGTGCCCTCCTCCCATTT
1 CCCATTCCCATTTCCCATTCCCATTCCCATTTCCCATTCCACCGTGCCCTCCTCCCATTT
* * * * * *
13177887 CCCATTCCCATCTCCCCTCTTCCA-T-CGATTCCCCTTTTCCACCGTGCCCTCCTCCCATTT
1 CCCATTCCCATTTCCCAT-TCCCATTCCCATTTCCC-ATTCCACCGTGCCCTCCTCCCATTT
* *
13177947 CCCATCCCCATGCAATACCCATTCCCATTCCCA-TTCCCATT
1 CCCATTCCCAT----TTCCCATTCCCATTCCCATTTCCCATT
13177988 TCCCATTCCC
Statistics
Matches: 79, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
59 7 0.09
60 51 0.65
61 4 0.05
63 6 0.08
64 9 0.11
65 2 0.03
ACGTcount: A:0.14, C:0.50, G:0.04, T:0.32
Consensus pattern (60 bp):
CCCATTCCCATTTCCCATTCCCATTCCCATTTCCCATTCCACCGTGCCCTCCTCCCATTT
Found at i:13177973 original size:6 final size:6
Alignment explanation
Indices: 13177964--13178004 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
13177954 CCATGCAATA
13177964 CCCATT CCCATT CCCATT CCCATTT CCCATT CCCATCT CCC
1 CCCATT CCCATT CCCATT CCCA-TT CCCATT CCCAT-T CCC
13178005 CTCTTCCATC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 23 0.70
7 10 0.30
ACGTcount: A:0.15, C:0.54, G:0.00, T:0.32
Consensus pattern (6 bp):
CCCATT
Found at i:13177992 original size:13 final size:13
Alignment explanation
Indices: 13177964--13178004 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
13177954 CCATGCAATA
13177964 CCCATTCCCA-TT
1 CCCATTCCCATTT
13177976 CCCATTCCCATTT
1 CCCATTCCCATTT
*
13177989 CCCATTCCCATCT
1 CCCATTCCCATTT
13178002 CCC
1 CCC
13178005 CTCTTCCATC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.15, C:0.54, G:0.00, T:0.32
Consensus pattern (13 bp):
CCCATTCCCATTT
Found at i:13177992 original size:19 final size:19
Alignment explanation
Indices: 13177964--13178004 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
13177954 CCATGCAATA
13177964 CCCATTCCCATTCCCAT-T
1 CCCATTCCCATTCCCATCT
13177982 CCCATTTCCCATTCCCATCT
1 CCCA-TTCCCATTCCCATCT
13178002 CCC
1 CCC
13178005 CTCTTCCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 13 0.62
20 4 0.19
ACGTcount: A:0.15, C:0.54, G:0.00, T:0.32
Consensus pattern (19 bp):
CCCATTCCCATTCCCATCT
Found at i:13177992 original size:137 final size:136
Alignment explanation
Indices: 13177746--13177999 Score: 440
Period size: 137 Copynumber: 1.9 Consensus size: 136
13177736 ATACAATGCA
*
13177746 ATTTCTCCATTCCCATCTCCCCTCTTCCATCATTCCCCTCTTCCACTGTGCCCTCCTCCCATTTC
1 ATTTCTCCATTCCCATCTCCCCTCTTCCATCATTCCCCTCTTCCACCGTGCCCTCCTCCCATTTC
*
13177811 CCATTCCCATGCAATACCCATTCCCATTTCCCATTCCCATTCCCATTTCCCATTCCACCGTGCCC
66 CCATCCCCATGCAATACCCATTCCCATTTCCCATTCCCATTCCCA-TTCCCATTCCACCGTGCCC
13177876 TCCTCCC
130 TCCTCCC
*
13177883 ATTTC-CCATTCCCATCTCCCCTCTTCCATCGATTCCCCTTTTCCACCGTGCCCTCCTCCCATTT
1 ATTTCTCCATTCCCATCTCCCCTCTTCCATC-ATTCCCCTCTTCCACCGTGCCCTCCTCCCATTT
13177947 CCCATCCCCATGCAATACCCATTCCCA-TTCCCATTCCCATTTCCCATTCCCAT
65 CCCATCCCCATGCAATACCCATTCCCATTTCCCATTCCCA-TTCCCATTCCCAT
13178000 CTCCCCTCTT
Statistics
Matches: 112, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
136 44 0.39
137 68 0.61
ACGTcount: A:0.15, C:0.49, G:0.04, T:0.33
Consensus pattern (136 bp):
ATTTCTCCATTCCCATCTCCCCTCTTCCATCATTCCCCTCTTCCACCGTGCCCTCCTCCCATTTC
CCATCCCCATGCAATACCCATTCCCATTTCCCATTCCCATTCCCATTCCCATTCCACCGTGCCCT
CCTCCC
Found at i:13178003 original size:102 final size:103
Alignment explanation
Indices: 13177879--13178096 Score: 395
Period size: 102 Copynumber: 2.1 Consensus size: 103
13177869 CGTGCCCTCC
*
13177879 TCCCATTTCCCATTCCCATCTCCCCTCTTCCATCGATTCCCCTTTTCCACCGTGCCCTCCTCCCA
1 TCCCATTTCCCATTCCCATCTCCCCTCTTCCATCGATTCCCCTCTTCCACCGTGCCCTCCTCCCA
13177944 TTTCCCATCCCCATGCAATACCCATTCCCA-TTCCCAT
66 TTTCCCATCCCCATGCAATACCCATTCCCATTTCCCAT
*
13177981 TCCCATTTCCCATTCCCATCTCCCCTCTTCCATCGATTCCTCTCTTCCACCGTGCCCTCCTCCCA
1 TCCCATTTCCCATTCCCATCTCCCCTCTTCCATCGATTCCCCTCTTCCACCGTGCCCTCCTCCCA
*
13178046 TTTCCCATTCCCATGCAATACCCATTCCCATTTCCCAT
66 TTTCCCATCCCCATGCAATACCCATTCCCATTTCCCAT
13178084 TCCCA-TTCCCATT
1 TCCCATTTCCCATT
13178097 ATCAACAACA
Statistics
Matches: 112, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
102 100 0.89
103 12 0.11
ACGTcount: A:0.15, C:0.49, G:0.04, T:0.33
Consensus pattern (103 bp):
TCCCATTTCCCATTCCCATCTCCCCTCTTCCATCGATTCCCCTCTTCCACCGTGCCCTCCTCCCA
TTTCCCATCCCCATGCAATACCCATTCCCATTTCCCAT
Found at i:13178058 original size:6 final size:6
Alignment explanation
Indices: 13178041--13178096 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
13178031 CGTGCCCTCC
* * *
13178041 TCCCATT TCCCAT TCCCA- TGCAAT ACCCAT TCCCATT TCCCAT TCCCAT
1 TCCCA-T TCCCAT TCCCAT TCCCAT TCCCAT TCCCA-T TCCCAT TCCCAT
13178090 TCCCAT T
1 TCCCAT T
13178097 ATCAACAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
5 3 0.07
6 27 0.66
7 11 0.27
ACGTcount: A:0.20, C:0.45, G:0.02, T:0.34
Consensus pattern (6 bp):
TCCCAT
Found at i:13178059 original size:13 final size:13
Alignment explanation
Indices: 13178041--13178096 Score: 60
Period size: 13 Copynumber: 4.1 Consensus size: 13
13178031 CGTGCCCTCC
13178041 TCCCATTTCCCAT
1 TCCCATTTCCCAT
*
13178054 TCCCATGCAATACCCAT
1 TCCCAT----TTCCCAT
13178071 TCCCATTTCCCAT
1 TCCCATTTCCCAT
13178084 TCCCA-TTCCCAT
1 TCCCATTTCCCAT
13178096 T
1 T
13178097 ATCAACAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 8 0.22
13 17 0.46
17 12 0.32
ACGTcount: A:0.20, C:0.45, G:0.02, T:0.34
Consensus pattern (13 bp):
TCCCATTTCCCAT
Found at i:13178673 original size:13 final size:13
Alignment explanation
Indices: 13178636--13178678 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
13178626 TGTTATATGT
13178636 TTATAAATATT--
1 TTATAAATATTAA
13178647 TTATAGACATATTAA
1 TTATA-A-ATATTAA
13178662 TTATAAATATTAA
1 TTATAAATATTAA
13178675 TTAT
1 TTAT
13178679 CCTATTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 5 0.18
12 1 0.04
13 16 0.57
14 1 0.04
15 5 0.18
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (13 bp):
TTATAAATATTAA
Found at i:13182900 original size:30 final size:29
Alignment explanation
Indices: 13182864--13182920 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
13182854 TTTTTAGATT
13182864 TGAAAAATA-AAATAACTAAATTCCTAAAAA
1 TGAAAAATATAAA-AACTAAATT-CTAAAAA
*
13182894 TGAAAAATATAAAGACTAAATTCTAAA
1 TGAAAAATATAAAAACTAAATTCTAAA
13182921 TGCAAGAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 5 0.20
30 17 0.68
31 3 0.12
ACGTcount: A:0.61, C:0.09, G:0.05, T:0.25
Consensus pattern (29 bp):
TGAAAAATATAAAAACTAAATTCTAAAAA
Found at i:13189905 original size:41 final size:41
Alignment explanation
Indices: 13189820--13189910 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
13189810 CCGATACTTT
* * *
13189820 GCCTGATAGACATAAAGTCTGAATTGTTTCACCGGCATCCA
1 GCCTGCTAGACATAAAGTCTGAATTGTTTCACCGGAATCAA
* *
13189861 GCCTGCTAGACATAGAGTCTGAATTGTTTCACTGGAAAT-AA
1 GCCTGCTAGACATAAAGTCTGAATTGTTTCACCGG-AATCAA
*
13189902 GCCTTCTAG
1 GCCTGCTAG
13189911 GCACTGAGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 41 0.95
42 2 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
GCCTGCTAGACATAAAGTCTGAATTGTTTCACCGGAATCAA
Found at i:13193975 original size:17 final size:19
Alignment explanation
Indices: 13193953--13193989 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13193943 GATTAATCCA
13193953 ATAATT-TATA-CATTTAT
1 ATAATTATATACCATTTAT
13193970 ATAATTATATACCATTTAT
1 ATAATTATATACCATTTAT
13193989 A
1 A
13193990 CTTTAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAATTATATACCATTTAT
Found at i:13194214 original size:8 final size:8
Alignment explanation
Indices: 13194201--13194225 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13194191 GCGGACACAA
13194201 TCGACTAC
1 TCGACTAC
13194209 TCGACTAC
1 TCGACTAC
13194217 TCGACTAC
1 TCGACTAC
13194225 T
1 T
13194226 TTCGTTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.36, G:0.12, T:0.28
Consensus pattern (8 bp):
TCGACTAC
Found at i:13194512 original size:29 final size:27
Alignment explanation
Indices: 13194479--13194541 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
13194469 CATTTCATTT
* *
13194479 ATTTCACATTTTAGTCCCCTAAAAATTCA
1 ATTTCACAATTTA-T-CCCTAAAAACTCA
**
13194508 ATTTCACAATTTATCCCTAATTACTCA
1 ATTTCACAATTTATCCCTAAAAACTCA
13194535 ATTTCAC
1 ATTTCAC
13194542 CAAAAATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 17 0.57
28 1 0.03
29 12 0.40
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.40
Consensus pattern (27 bp):
ATTTCACAATTTATCCCTAAAAACTCA
Found at i:13196878 original size:16 final size:16
Alignment explanation
Indices: 13196848--13196894 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
13196838 AAAATCTCTT
13196848 TTATTTATA--AAATA
1 TTATTTATATTAAATA
*
13196862 TTATTTATCTTAAATA
1 TTATTTATATTAAATA
13196878 TTATTTATATTAAATA
1 TTATTTATATTAAATA
13196894 T
1 T
13196895 GGTATATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 8 0.28
16 21 0.72
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTTATATTAAATA
Found at i:13204905 original size:19 final size:21
Alignment explanation
Indices: 13204881--13204920 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
13204871 TTTAATTTTT
13204881 TTAAAATTT-T-AAAATATTA
1 TTAAAATTTATAAAAATATTA
13204900 TTAAAATTTATAAAAATATTA
1 TTAAAATTTATAAAAATATTA
13204921 AATAAATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 1 0.05
21 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAAATTTATAAAAATATTA
Found at i:13204909 original size:18 final size:19
Alignment explanation
Indices: 13204881--13204922 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
13204871 TTTAATTTTT
*
13204881 TTAAAATTTTA-AAATATTA
1 TTAAAATTTTATAAA-AATA
13204900 TTAAAA-TTTATAAAAATA
1 TTAAAATTTTATAAAAATA
13204918 TTAAA
1 TTAAA
13204923 TAAATCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTAAAATTTTATAAAAATA
Found at i:13204932 original size:28 final size:27
Alignment explanation
Indices: 13204901--13204953 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
13204891 AAAATATTAT
13204901 TAAAATTTAT-AAAAATATTAAATAAATC
1 TAAAATTT-TCAAAAA-ATTAAATAAATC
*
13204929 TAAAATTTTCAAAAAATTTAATAAA
1 TAAAATTTTCAAAAAATTAAATAAA
13204954 AATCATTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (27 bp):
TAAAATTTTCAAAAAATTAAATAAATC
Found at i:13206631 original size:22 final size:22
Alignment explanation
Indices: 13206595--13206656 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
13206585 AATAATAAAA
* *
13206595 AAAACAATAAGAAAATAGCAAC
1 AAAACAGTAAAAAAATAGCAAC
* *
13206617 AAAACAGTAAAAAAAAAGCAAG
1 AAAACAGTAAAAAAATAGCAAC
*
13206639 AAAACAGGAAAAAAATAG
1 AAAACAGTAAAAAAATAG
13206657 AAACTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.71, C:0.10, G:0.13, T:0.06
Consensus pattern (22 bp):
AAAACAGTAAAAAAATAGCAAC
Found at i:13209821 original size:20 final size:22
Alignment explanation
Indices: 13209774--13209823 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
13209764 TATATATATA
*
13209774 TGTTTGAATGATGAATTTATTT
1 TGTTTGAATGATGAATTTAATT
* *
13209796 TATTTGAATG-T-ACTTTAATT
1 TGTTTGAATGATGAATTTAATT
13209816 TGTTTGAA
1 TGTTTGAA
13209824 AATTGGTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 14 0.58
21 1 0.04
22 9 0.38
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.54
Consensus pattern (22 bp):
TGTTTGAATGATGAATTTAATT
Found at i:13211364 original size:2 final size:2
Alignment explanation
Indices: 13211357--13211386 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13211347 GGCATGTGAA
13211357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13211387 GCATGATCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13215308 original size:34 final size:35
Alignment explanation
Indices: 13215263--13215330 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
13215253 CCAGTAAAAT
*
13215263 ATTTTCCGTAAAATAATTT-CGGGAAAATGTTTTA
1 ATTTTCCGTAAAATAATTTACGGGAAAATATTTTA
* * *
13215297 ATTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 ATTTTCCGTAAAATAATTTACGGGAAAATATTTT
13215331 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.44
Consensus pattern (35 bp):
ATTTTCCGTAAAATAATTTACGGGAAAATATTTTA
Found at i:13222709 original size:17 final size:16
Alignment explanation
Indices: 13222687--13222726 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
13222677 TGAACTTTTT
13222687 ATATTTTTTAATTTTAA
1 ATATTTTTTAA-TTTAA
*
13222704 ATA-TTTTTAATTTAT
1 ATATTTTTTAATTTAA
13222719 ATATTTTT
1 ATATTTTT
13222727 AAAATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 7 0.33
16 11 0.52
17 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATATTTTTTAATTTAA
Found at i:13222734 original size:16 final size:16
Alignment explanation
Indices: 13222684--13222734 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
13222674 TTATGAACTT
*
13222684 TTTATAT-TTTTTAAT
1 TTTATATATTTTTAAA
*
13222699 TTTAAATATTTTT-AA
1 TTTATATATTTTTAAA
13222714 TTTATATATTTTTAAA
1 TTTATATATTTTTAAA
*
13222730 ATTAT
1 TTTAT
13222735 TTGTTGACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATATATTTTTAAA
Found at i:13225339 original size:21 final size:22
Alignment explanation
Indices: 13225299--13225345 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
13225289 CTCTGCTCAA
* *
13225299 ACTCCACCTGCTGTGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
13225320 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
13225342 ACTC
1 ACTC
13225346 ACTCCTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:13231347 original size:82 final size:84
Alignment explanation
Indices: 13231229--13231401 Score: 314
Period size: 82 Copynumber: 2.1 Consensus size: 84
13231219 TTTACATTAA
*
13231229 AAATATATTTTATCAAATGCTAAAAAGGACTTCTTTTTAGAAAAAAAAAAAAGAGGACTTTTTTT
1 AAATATATTTTATC-AATGCTAAAAAGGACTTCTTTTTAAAAAAAAAAAAAAGAGGACTTTTTTT
13231294 TTAAACATCTTTCAACTTTT
65 TTAAACATCTTTCAACTTTT
13231314 AAAT-TATTTTATC-ATGCTAAAAAGGACTTCTTTTTAAAAAAAAAAAAAAGAGGACTTTTTTTT
1 AAATATATTTTATCAATGCTAAAAAGGACTTCTTTTTAAAAAAAAAAAAAAGAGGACTTTTTTTT
13231377 TAAACATCTTTCAACTTTT
66 TAAACATCTTTCAACTTTT
13231396 AAATAT
1 AAATAT
13231402 TAATTTTTAT
Statistics
Matches: 86, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
82 72 0.84
83 1 0.01
84 9 0.10
85 4 0.05
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (84 bp):
AAATATATTTTATCAATGCTAAAAAGGACTTCTTTTTAAAAAAAAAAAAAAGAGGACTTTTTTTT
TAAACATCTTTCAACTTTT
Found at i:13242898 original size:61 final size:60
Alignment explanation
Indices: 13242801--13242953 Score: 177
Period size: 61 Copynumber: 2.5 Consensus size: 60
13242791 TTAGTCTAAT
*
13242801 AACAAATTTAGTTCTCTAATGTTTACATAATTTATCAATTTAATCTTAAA-TATAAAAAAGTTC
1 AACAAATTTAG-TCTCTAATGTTTACAAAATTTATCAATTTAAT-TTAAATTAT-AAAAA-TTC
* * *
13242864 AACAAATTTAG-CTTTAATGTTTACAAAATTTATCATTTTAGTTTAAATTATAAAAATTC
1 AACAAATTTAGTCTCTAATGTTTACAAAATTTATCAATTTAATTTAAATTATAAAAATTC
* **
13242923 AATAAATTTAGTC-CTCAACATTTACAAAATT
1 AACAAATTTAGTCTCT-AATGTTTACAAAATT
13242954 ACAAAGTTTA
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
59 14 0.18
60 24 0.30
61 30 0.38
63 11 0.14
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (60 bp):
AACAAATTTAGTCTCTAATGTTTACAAAATTTATCAATTTAATTTAAATTATAAAAATTC
Found at i:13242949 original size:60 final size:62
Alignment explanation
Indices: 13242801--13242953 Score: 179
Period size: 60 Copynumber: 2.5 Consensus size: 62
13242791 TTAGTCTAAT
* *
13242801 AACAAATTTAGTTCTCTAATGTTTACATAATTTATCAATTTAATCTTAAATATAAAAAAGTTC
1 AACAAATTTAGTCCTC-AATGTTTACAAAATTTATCAATTTAATCTTAAATATAAAAAAGTTC
* * * *
13242864 AACAAATTTAG-CTTTAATGTTTACAAAATTTATCATTTTAGT-TTAAAT-TATAAAAA-TTC
1 AACAAATTTAGTCCTCAATGTTTACAAAATTTATCAATTTAATCTTAAATATA-AAAAAGTTC
* **
13242923 AATAAATTTAGTCCTCAACATTTACAAAATT
1 AACAAATTTAGTCCTCAATGTTTACAAAATT
13242954 ACAAAGTTTA
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
59 15 0.19
60 26 0.34
61 24 0.31
62 1 0.01
63 11 0.14
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (62 bp):
AACAAATTTAGTCCTCAATGTTTACAAAATTTATCAATTTAATCTTAAATATAAAAAAGTTC
Found at i:13244184 original size:69 final size:69
Alignment explanation
Indices: 13244103--13244247 Score: 220
Period size: 69 Copynumber: 2.1 Consensus size: 69
13244093 GAATTTGAAC
* *
13244103 TAAAATGACAAATATTGTAAA-AATGAGCTCTAAATTTGTTGAACTTTTTTATATTTAGGATTAA
1 TAAAATGACAAATATTGTAAACAATGAGCACTAAATTTGTTAAAC-TTTTTATATTTAGGATTAA
13244167 ATTGA
65 ATTGA
* * *
13244172 TAAAATGACAAATTTTGTAAACATTGAGCACTAAGTTTGTTAAACTTTTTATATTTAGGATTAAA
1 TAAAATGACAAATATTGTAAACAATGAGCACTAAATTTGTTAAACTTTTTATATTTAGGATTAAA
13244237 TTGA
66 TTGA
*
13244241 TAGAATG
1 TAAAATG
13244248 TGTAAACATT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
69 50 0.72
70 19 0.28
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (69 bp):
TAAAATGACAAATATTGTAAACAATGAGCACTAAATTTGTTAAACTTTTTATATTTAGGATTAAA
TTGA
Found at i:13246285 original size:26 final size:26
Alignment explanation
Indices: 13246256--13246330 Score: 141
Period size: 26 Copynumber: 2.9 Consensus size: 26
13246246 AGGTTGAGAT
*
13246256 CAACAAAGTAGAACCATCAAATTATC
1 CAACAAAATAGAACCATCAAATTATC
13246282 CAACAAAATAGAACCATCAAATTATC
1 CAACAAAATAGAACCATCAAATTATC
13246308 CAACAAAATAGAACCATCAAATT
1 CAACAAAATAGAACCATCAAATT
13246331 TTCTATTGTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.53, C:0.23, G:0.05, T:0.19
Consensus pattern (26 bp):
CAACAAAATAGAACCATCAAATTATC
Found at i:13246387 original size:17 final size:17
Alignment explanation
Indices: 13246367--13246400 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13246357 TCAACTGGGA
13246367 GGTATCATCAATAACAT
1 GGTATCATCAATAACAT
13246384 GGTATCATCAATAACAT
1 GGTATCATCAATAACAT
13246401 CAAGTGTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (17 bp):
GGTATCATCAATAACAT
Found at i:13246798 original size:30 final size:30
Alignment explanation
Indices: 13246761--13246989 Score: 197
Period size: 30 Copynumber: 7.7 Consensus size: 30
13246751 TAAAGTCAGG
*
13246761 TACATAATATAAACAGTAATATACATAACA
1 TACATAATATAAACAATAATATACATAACA
* *
13246791 TAAATAATATAAAACAACAATATACATAACA
1 TACATAATAT-AAACAATAATATACATAACA
*** *
13246822 TACATAATATAAATTGTAATAAACATAACA
1 TACATAATATAAACAATAATATACATAACA
* * *
13246852 TATATAATACAAACAATAATAAACATAACA
1 TACATAATATAAACAATAATATACATAACA
*
13246882 TACATTATATAAA-AATTAATATACATAACA
1 TACATAATATAAACAA-TAATATACATAACA
** *
13246912 TACAT-A-AGCAATAAT-ATATTACATAACA
1 TACATAATATAAACAATAATA-TACATAACA
* *
13246940 TGCATAA-AT--A-GA-AATATACATAACA
1 TACATAATATAAACAATAATATACATAACA
13246965 TACATAATATACATACTAATAATAT
1 TACATAATATA-A-AC-AATAATAT
13246990 CAATTGCCTG
Statistics
Matches: 160, Mismatches: 25, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
25 15 0.09
26 6 0.04
27 4 0.03
28 17 0.11
29 7 0.04
30 78 0.49
31 27 0.17
32 1 0.01
33 5 0.03
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (30 bp):
TACATAATATAAACAATAATATACATAACA
Found at i:13246916 original size:9 final size:9
Alignment explanation
Indices: 13246902--13246979 Score: 56
Period size: 9 Copynumber: 8.8 Consensus size: 9
13246892 AAAAATTAAT
13246902 ATACATAAC
1 ATACATAAC
13246911 ATACATAAGC
1 ATACATAA-C
13246921 AATA-ATATA-
1 -ATACATA-AC
*
13246930 TTACATAAC
1 ATACATAAC
*
13246939 ATGCATAA-
1 ATACATAAC
* *
13246947 ATAGA-AAT
1 ATACATAAC
13246955 ATACATAAC
1 ATACATAAC
*
13246964 ATACATAAT
1 ATACATAAC
13246973 ATACATA
1 ATACATA
13246980 CTAATAATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
7 2 0.04
8 10 0.19
9 34 0.63
10 4 0.07
11 4 0.07
ACGTcount: A:0.55, C:0.14, G:0.04, T:0.27
Consensus pattern (9 bp):
ATACATAAC
Found at i:13246918 original size:25 final size:25
Alignment explanation
Indices: 13246890--13246971 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
13246880 CATACATTAT
*
13246890 ATAAAAATTAATATACATAACATAC
1 ATAAAAATAAATATACATAACATAC
* *
13246915 ATAAGCAATAATATATTACATAACATGC
1 ATAA-AAATAA-ATA-TACATAACATAC
* *
13246943 ATAAATAGAAATATACATAACATAC
1 ATAAAAATAAATATACATAACATAC
13246968 ATAA
1 ATAA
13246972 TATACATACT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
25 19 0.40
26 7 0.15
27 6 0.13
28 15 0.32
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (25 bp):
ATAAAAATAAATATACATAACATAC
Found at i:13249318 original size:27 final size:27
Alignment explanation
Indices: 13249287--13249480 Score: 234
Period size: 27 Copynumber: 7.3 Consensus size: 27
13249277 CCCCAAAATA
* * *
13249287 GGTAAAATAACCAAAATACACCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
13249314 GGTAAAATGACCGAAATACTCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
13249341 GGTAAAATGACCG--A-A-CCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
*
13249364 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
13249391 GGTAAAATCATCGAAATACCCCCACAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
13249418 GGCAAAATGACCGAAATACTCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
13249445 GGTAAAATGATCGAAAATACCCCCATAG
1 GGTAAAATGACCG-AAATACCCCCATAG
13249473 GGTAAAAT
1 GGTAAAAT
13249481 AACTGTTATA
Statistics
Matches: 143, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
23 18 0.13
24 1 0.01
25 2 0.01
26 1 0.01
27 101 0.71
28 20 0.14
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:13249425 original size:77 final size:80
Alignment explanation
Indices: 13249286--13249480 Score: 252
Period size: 77 Copynumber: 2.5 Consensus size: 80
13249276 ACCCCAAAAT
* * * * * * * *
13249286 AGGTAAAATAACCAAAATACACCCATAGGGTAAAATGACCGAAATACTCCCATAGGGTAAAATGA
1 AGGTAAAATGATCGAAATACCCCCATAGGGTAAAATCACCGAAATACCCCCACAGGGCAAAATGA
13249351 CCG-A-AC-CCCATA
66 CCGAATACTCCCATA
*
13249363 AGGTAAAATGATCGAAATACCCCCATAGGGTAAAATCATCGAAATACCCCCACAGGGCAAAATGA
1 AGGTAAAATGATCGAAATACCCCCATAGGGTAAAATCACCGAAATACCCCCACAGGGCAAAATGA
*
13249428 CCGAAATACTCCTATA
66 CCG-AATACTCCCATA
*
13249444 GGGTAAAATGATCGAAAATACCCCCATAGGGTAAAAT
1 AGGTAAAATGATCG-AAATACCCCCATAGGGTAAAAT
13249481 AACTGTTATA
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
77 59 0.58
79 1 0.01
80 2 0.02
81 18 0.18
82 22 0.22
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.17
Consensus pattern (80 bp):
AGGTAAAATGATCGAAATACCCCCATAGGGTAAAATCACCGAAATACCCCCACAGGGCAAAATGA
CCGAATACTCCCATA
Found at i:13253529 original size:30 final size:30
Alignment explanation
Indices: 13253492--13253703 Score: 219
Period size: 30 Copynumber: 7.3 Consensus size: 30
13253482 TAAAATCAGG
13253492 TACATAATATAAACAGTAATATACATAACA
1 TACATAATATAAACAGTAATATACATAACA
* ** *
13253522 TAAATAATATAAACAACAATATACAGAACA
1 TACATAATATAAACAGTAATATACATAACA
* ** *
13253552 TACATAATGTAAATTGTAATATACATGACA
1 TACATAATATAAACAGTAATATACATAACA
* *
13253582 TACATAATATAAACAATAATAAACATAACA
1 TACATAATATAAACAGTAATATACATAACA
13253612 TACATGAA-ATAAACAGTAATATACATAACA
1 TACAT-AATATAAACAGTAATATACATAACA
* *
13253642 TACATAA-ACAATA-A-T-ATACTACGTAACA
1 TACATAATATAA-ACAGTAATA-TACATAACA
13253670 TACATAA-AT----AGTAATATACATAACA
1 TACATAATATAAACAGTAATATACATAACA
13253695 TACATAATA
1 TACATAATA
13253704 GACATACTAA
Statistics
Matches: 152, Mismatches: 24, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
24 1 0.01
25 16 0.11
26 4 0.03
27 3 0.02
28 17 0.11
29 6 0.04
30 103 0.68
31 2 0.01
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (30 bp):
TACATAATATAAACAGTAATATACATAACA
Found at i:13253611 original size:15 final size:15
Alignment explanation
Indices: 13253574--13253709 Score: 67
Period size: 15 Copynumber: 9.3 Consensus size: 15
13253564 ATTGTAATAT
*
13253574 ACATGACATACAT-A
1 ACATAACATACATAA
*
13253588 ATATAAACAATA-ATAA
1 ACAT-AAC-ATACATAA
*
13253604 ACATAACATACATGA
1 ACATAACATACATAA
*
13253619 A-ATAAACAGTA-ATAT
1 ACAT-AACA-TACATAA
13253634 ACATAACATACATAA
1 ACATAACATACATAA
*
13253649 ACAATAATATAC-T--
1 AC-ATAACATACATAA
*
13253662 ACGTAACATACATAA
1 ACATAACATACATAA
* *
13253677 ATAGTAATATACAT-A
1 ACA-TAACATACATAA
*
13253692 ACAT-ACATA-ATAG
1 ACATAACATACATAA
13253705 ACATA
1 ACATA
13253710 CTAATAATAT
Statistics
Matches: 91, Mismatches: 16, Indels: 30
0.66 0.12 0.22
Matches are distributed among these distances:
12 9 0.10
13 11 0.12
14 11 0.12
15 32 0.35
16 28 0.31
ACGTcount: A:0.57, C:0.15, G:0.04, T:0.24
Consensus pattern (15 bp):
ACATAACATACATAA
Found at i:13253624 original size:20 final size:21
Alignment explanation
Indices: 13253599--13253637 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13253589 TATAAACAAT
13253599 AATAAACA-TAACATACATGA
1 AATAAACAGTAACATACATGA
*
13253619 AATAAACAGTAATATACAT
1 AATAAACAGTAACATACAT
13253638 AACATACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.23
Consensus pattern (21 bp):
AATAAACAGTAACATACATGA
Found at i:13253658 original size:25 final size:25
Alignment explanation
Indices: 13253590--13253701 Score: 116
Period size: 25 Copynumber: 4.2 Consensus size: 25
13253580 CATACATAAT
*
13253590 ATAAACAATAATAAACATAACATAC
1 ATAAACAATAATATACATAACATAC
*
13253615 ATGAAATAAACAGTAATATACATAACATAC
1 -----ATAAACAATAATATACATAACATAC
13253645 ATAAACAATAATATACTACGTAACATAC
1 ATAAACAATAATATAC-A--TAACATAC
* *
13253673 ATAAATAGTAATATACATAACATAC
1 ATAAACAATAATATACATAACATAC
13253698 ATAA
1 ATAA
13253702 TAGACATACT
Statistics
Matches: 74, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
25 27 0.36
26 1 0.01
27 1 0.01
28 22 0.30
30 23 0.31
ACGTcount: A:0.58, C:0.14, G:0.04, T:0.24
Consensus pattern (25 bp):
ATAAACAATAATATACATAACATAC
Found at i:13253676 original size:28 final size:25
Alignment explanation
Indices: 13253620--13253701 Score: 119
Period size: 25 Copynumber: 3.2 Consensus size: 25
13253610 CATACATGAA
13253620 ATAAACAGTAATATACATAACATAC
1 ATAAACAGTAATATACATAACATAC
*
13253645 ATAAACAATAATATACTACGTAACATAC
1 ATAAACAGTAATATAC-A--TAACATAC
*
13253673 ATAAATAGTAATATACATAACATAC
1 ATAAACAGTAATATACATAACATAC
13253698 ATAA
1 ATAA
13253702 TAGACATACT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
25 27 0.53
26 1 0.02
27 1 0.02
28 22 0.43
ACGTcount: A:0.56, C:0.15, G:0.04, T:0.26
Consensus pattern (25 bp):
ATAAACAGTAATATACATAACATAC
Found at i:13253708 original size:9 final size:9
Alignment explanation
Indices: 13253492--13253709 Score: 84
Period size: 9 Copynumber: 22.7 Consensus size: 9
13253482 TAAAATCAGG
13253492 TACATAATA
1 TACATAATA
13253501 TAAACAGTAATA
1 T--ACA-TAATA
*
13253513 TACATAACA
1 TACATAATA
*
13253522 TAAATAATA
1 TACATAATA
*
13253531 TAAACAACAATA
1 T--AC-ATAATA
* *
13253543 TACAGAACA
1 TACATAATA
*
13253552 TACATAATG
1 TACATAATA
*
13253561 TAAATTGTAATA
1 TACA---TAATA
* *
13253573 TACATGACA
1 TACATAATA
13253582 TACATAATA
1 TACATAATA
13253591 TAAACAATAATA
1 T--AC-ATAATA
* *
13253603 AACATAACA
1 TACATAATA
13253612 TACATGAAATA
1 TACAT--AATA
*
13253623 AACAGTAATA
1 TACA-TAATA
*
13253633 TACATAACA
1 TACATAATA
13253642 TACATAA-A
1 TACATAATA
*
13253650 CA-ATAATA
1 TACATAATA
*
13253658 TACTACGTAACA
1 TAC-A--TAATA
13253670 TACATAA-A
1 TACATAATA
*
13253678 TA-GTAATA
1 TACATAATA
*
13253686 TACATAACA
1 TACATAATA
13253695 TACATAATA
1 TACATAATA
*
13253704 GACATA
1 TACATA
13253710 CTAATAATAT
Statistics
Matches: 155, Mismatches: 32, Indels: 44
0.67 0.14 0.19
Matches are distributed among these distances:
7 7 0.05
8 10 0.06
9 77 0.50
10 15 0.10
11 13 0.08
12 33 0.21
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (9 bp):
TACATAATA
Found at i:13256874 original size:60 final size:60
Alignment explanation
Indices: 13256801--13256922 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
13256791 CACTAAACTG
13256801 TTCAATTGAAACTATGTTTGCTTTTATAATTCTAAGTATTTTGTTTTATATTCTCAAACA
1 TTCAATTGAAACTATGTTTGCTTTTATAATTCTAAGTATTTTGTTTTATATTCTCAAACA
13256861 TTCAATTGAAACTATGTTTGCTTTTATAATTCTAAGTATTTTGTTTTATATTCTCAAACA
1 TTCAATTGAAACTATGTTTGCTTTTATAATTCTAAGTATTTTGTTTTATATTCTCAAACA
13256921 TT
1 TT
13256923 TAATCTAAGG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (60 bp):
TTCAATTGAAACTATGTTTGCTTTTATAATTCTAAGTATTTTGTTTTATATTCTCAAACA
Found at i:13257450 original size:13 final size:13
Alignment explanation
Indices: 13257432--13257456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13257422 ACACTCAAAT
13257432 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
13257445 TTCTCAAAAGCA
1 TTCTCAAAAGCA
13257457 ATGAAGAACT
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:13264193 original size:90 final size:86
Alignment explanation
Indices: 13264003--13264225 Score: 281
Period size: 90 Copynumber: 2.6 Consensus size: 86
13263993 AATCTAAGGT
* *
13264003 CTTTTTGATGCATTTTGACAA-TTCAAGTACCCAATTGATTGC--AAAAAAAGGGCTTAATTGCT
1 CTTTTTTATGCATTTTGA-AAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAGGGCTTAATTGCT
**
13264065 ATTTTTGAAAAAGTTTGAGGGT
65 ATTTTTGAAAAAGTTTGAGGAC
* * *
13264087 TTTTTTTATGTATTTTGAAAGTTCAAGCACCCAATTGAGTGCAAAAAAAGTAAGGGCTTAATTGC
1 CTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAA--AAGGGCTTAATTGC
* *
13264152 TTTTTTTTTTAAAAAGTTTGAGGAC
64 --TATTTTTGAAAAAGTTTGAGGAC
* *
13264177 CTTTTTTATGCCTTTTGAAAGTTCAAGTACCTAATTGAGTGCAAAAAAA
1 CTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAA
13264226 TACTTTGAAG
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
83 2 0.02
84 34 0.29
86 5 0.04
88 14 0.12
90 63 0.53
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (86 bp):
CTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAGGGCTTAATTGCTA
TTTTTGAAAAAGTTTGAGGAC
Found at i:13264402 original size:33 final size:35
Alignment explanation
Indices: 13264344--13264416 Score: 114
Period size: 34 Copynumber: 2.1 Consensus size: 35
13264334 CATAGAGAAC
*
13264344 TTTTTATATCAATTTAAGTACCTGAAGTTTTC-AA
1 TTTTTATATCAATTTAAGTACCTGAAGTTTCCAAA
*
13264378 TTTTTATATCAGTTT-AGTACCTGAAGTTTCCAAA
1 TTTTTATATCAATTTAAGTACCTGAAGTTTCCAAA
13264412 TTTTT
1 TTTTT
13264417 TTTTATCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 15 0.42
34 21 0.58
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (35 bp):
TTTTTATATCAATTTAAGTACCTGAAGTTTCCAAA
Found at i:13266628 original size:4 final size:4
Alignment explanation
Indices: 13266619--13266683 Score: 130
Period size: 4 Copynumber: 16.2 Consensus size: 4
13266609 TAATTAAATC
13266619 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
13266667 ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT A
13266684 TAACTATGAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:13269519 original size:117 final size:117
Alignment explanation
Indices: 13269309--13269519 Score: 341
Period size: 117 Copynumber: 1.8 Consensus size: 117
13269299 TTTGATTTGT
* *
13269309 TGGTTATTTGTGATTTATCATTGCAATTTCAGTGCCACAATGTAAGGTTTGTTTTGTCGATTTGT
1 TGGTTATTTATGATTTATCATTGCAATTTCAGTGCCACAATGTAAGGTTTGTTTTGTCGATTTAT
* * *
13269374 GATGCGACAGTGGTCCTGATTTTGTTGATAAAGCTGTTGTTAAAATTGTAGA
66 GATGCGACAGTGGTCCCGATGTTATTGATAAAGCTGTTGTTAAAATTGTAGA
* * *
13269426 TGGTTATTTATGATTTATTATTGTAATTTCAGTGCCACAATGTAGGGTTTGTTTTGTCGATTTAT
1 TGGTTATTTATGATTTATCATTGCAATTTCAGTGCCACAATGTAAGGTTTGTTTTGTCGATTTAT
*
13269491 GATGTGACAGTGGTCCCGATGTTATTGAT
66 GATGCGACAGTGGTCCCGATGTTATTGAT
13269520 TTCTGTTACC
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
117 85 1.00
ACGTcount: A:0.22, C:0.10, G:0.24, T:0.44
Consensus pattern (117 bp):
TGGTTATTTATGATTTATCATTGCAATTTCAGTGCCACAATGTAAGGTTTGTTTTGTCGATTTAT
GATGCGACAGTGGTCCCGATGTTATTGATAAAGCTGTTGTTAAAATTGTAGA
Found at i:13272683 original size:20 final size:21
Alignment explanation
Indices: 13272645--13272684 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
13272635 TCGACCATTT
*
13272645 AGGAACACAAGAATTAGTCAC
1 AGGAACACAAGAATAAGTCAC
*
13272666 AGGAA-ACATGAATAAGTCA
1 AGGAACACAAGAATAAGTCA
13272685 TCGTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.50, C:0.15, G:0.20, T:0.15
Consensus pattern (21 bp):
AGGAACACAAGAATAAGTCAC
Found at i:13273096 original size:14 final size:14
Alignment explanation
Indices: 13273077--13273112 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
13273067 AGTGTAAGGT
13273077 ATTTTGCCTACAAC
1 ATTTTGCCTACAAC
13273091 ATTTTGAGCCTACAAC
1 ATTTT--GCCTACAAC
13273107 ATTTTG
1 ATTTTG
13273113 GTTTTGGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.30
16 14 0.70
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (14 bp):
ATTTTGCCTACAAC
Found at i:13273103 original size:16 final size:16
Alignment explanation
Indices: 13273082--13273112 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13273072 AAGGTATTTT
13273082 GCCTACAACATTTTGA
1 GCCTACAACATTTTGA
13273098 GCCTACAACATTTTG
1 GCCTACAACATTTTG
13273113 GTTTTGGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (16 bp):
GCCTACAACATTTTGA
Found at i:13273469 original size:18 final size:18
Alignment explanation
Indices: 13273448--13273484 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
13273438 TGAGTTTTCG
13273448 AATTCGAATAACTCAAAT
1 AATTCGAATAACTCAAAT
*
13273466 AATTCGAATAATTCAAAT
1 AATTCGAATAACTCAAAT
13273484 A
1 A
13273485 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTCGAATAACTCAAAT
Found at i:13273768 original size:20 final size:21
Alignment explanation
Indices: 13273731--13273769 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13273721 ATCCGAGTTT
13273731 TCCCCTAAAACTTTTATTCCC
1 TCCCCTAAAACTTTTATTCCC
13273752 TCCCCTAAAAC-TTTATTC
1 TCCCCTAAAACTTTTATTC
13273770 TCTTCTCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (21 bp):
TCCCCTAAAACTTTTATTCCC
Found at i:13273790 original size:7 final size:7
Alignment explanation
Indices: 13273778--13273803 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13273768 TCTCTTCTCA
13273778 TCCCACC
1 TCCCACC
13273785 TCCCACC
1 TCCCACC
13273792 TCCCACC
1 TCCCACC
13273799 TCCCA
1 TCCCA
13273804 TCTACCCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.69, G:0.00, T:0.15
Consensus pattern (7 bp):
TCCCACC
Found at i:13274337 original size:5 final size:5
Alignment explanation
Indices: 13274327--13274357 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
13274317 CTCGAAAATT
*
13274327 TTCGA TTCGA TTCGA GTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
13274358 CGAATGCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (5 bp):
TTCGA
Found at i:13277642 original size:12 final size:12
Alignment explanation
Indices: 13277627--13277654 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13277617 TTTTATCCCA
13277627 TTTTTTTATGTT
1 TTTTTTTATGTT
13277639 TTTTTTTATGTT
1 TTTTTTTATGTT
13277651 TTTT
1 TTTT
13277655 GTGATCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (12 bp):
TTTTTTTATGTT
Found at i:13279833 original size:22 final size:22
Alignment explanation
Indices: 13279803--13279845 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13279793 ACACCAAAAC
*
13279803 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
*
13279825 AGGCCTTTAGCGGTGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
13279846 AGTGCCGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:13279917 original size:21 final size:21
Alignment explanation
Indices: 13279893--13279933 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
13279883 AGCGCCGCTA
13279893 CCTTTAGCGGCGCTTTTTAGG
1 CCTTTAGCGGCGCTTTTTAGG
*
13279914 CCTTTAGCGGTGCTTTTTAG
1 CCTTTAGCGGCGCTTTTTAG
13279934 TGCCGCAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.22, G:0.27, T:0.41
Consensus pattern (21 bp):
CCTTTAGCGGCGCTTTTTAGG
Found at i:13279954 original size:86 final size:86
Alignment explanation
Indices: 13279808--13279994 Score: 356
Period size: 86 Copynumber: 2.2 Consensus size: 86
13279798 AAAACAGGCT
13279808 TTTAGCGGCGCTTTTTTAGGCCTTTAGCGGTGCTTTTTAGTGCCGCAAAGCGCCGCAAAAGATGC
1 TTTAGCGGCGC-TTTTTAGGCCTTTAGCGGTGCTTTTTAGTGCCGCAAAGCGCCGCAAAAGATGC
13279873 CGCTAAAGATAGCGCCGCTACC
65 CGCTAAAGATAGCGCCGCTACC
13279895 TTTAGCGGCGCTTTTTAGGCCTTTAGCGGTGCTTTTTAGTGCCGCAAAGCGCCGCAAAAGATGCC
1 TTTAGCGGCGCTTTTTAGGCCTTTAGCGGTGCTTTTTAGTGCCGCAAAGCGCCGCAAAAGATGCC
13279960 GCTAAAGATAGCGCCGCTACC
66 GCTAAAGATAGCGCCGCTACC
*
13279981 TTTAGCGGGGCTTT
1 TTTAGCGGCGCTTT
13279995 CACAAAAAAC
Statistics
Matches: 99, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
86 88 0.89
87 11 0.11
ACGTcount: A:0.20, C:0.26, G:0.27, T:0.27
Consensus pattern (86 bp):
TTTAGCGGCGCTTTTTAGGCCTTTAGCGGTGCTTTTTAGTGCCGCAAAGCGCCGCAAAAGATGCC
GCTAAAGATAGCGCCGCTACC
Found at i:13280113 original size:43 final size:42
Alignment explanation
Indices: 13280066--13280211 Score: 168
Period size: 43 Copynumber: 3.4 Consensus size: 42
13280056 AGACTAAGAG
* *
13280066 CTTTAGCGGCGTTTTTAATAGAACCGCCGCTATAGAT-TGGTGT
1 CTTTAGCGGCGTTTTT-ATAGAAGCGCCGCTATAGATCAGG-GT
* *
13280109 CTTTAGCGGCGTTTTTGTTGAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTATAG-AAGCGCCGCTATAGATCAGGGT
* * *
13280152 CTTTAGCGGCGTTTTTTATATAAGCGCCGCTATAGATACATGGC
1 CTTTAGCGGCG-TTTTTATAGAAGCGCCGCTATAGAT-CAGGGT
*
13280196 CTTTAGCGGCGCTTTT
1 CTTTAGCGGCGTTTTT
13280212 CCCAAAAACG
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
42 2 0.02
43 64 0.72
44 23 0.26
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTTATAGAAGCGCCGCTATAGATCAGGGT
Found at i:13280224 original size:44 final size:43
Alignment explanation
Indices: 13280066--13280231 Score: 109
Period size: 43 Copynumber: 3.8 Consensus size: 43
13280056 AGACTAAGAG
* * * * * * *
13280066 CTTTAGCGGCGTTTTTAATAGAACCGCCGCTATAGAT-TGGTGT
1 CTTTAGCGGCGCTTTTCACAAAAACGCCGCTATAGATCAGG-GC
* **** * *
13280109 CTTTAGCGGCGTTTTTGTTGAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGCTTTTCACAAAAACGCCGCTATAGATCAGGGC
* * * * * *
13280152 CTTTAGCGGCGTTTTTTATATAAGCGCCGCTATAGATACATGGC
1 CTTTAGCGGCGCTTTTCACAAAAACGCCGCTATAGAT-CAGGGC
* *
13280196 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCAATAGA
1 CTTTAGCGGCGCTTTTCACAAAAACGCCGCTATAGA
13280232 CCCTGATCTA
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
43 67 0.66
44 35 0.34
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCACAAAAACGCCGCTATAGATCAGGGC
Found at i:13308286 original size:175 final size:176
Alignment explanation
Indices: 13307984--13308335 Score: 697
Period size: 175 Copynumber: 2.0 Consensus size: 176
13307974 AAAATAATTT
13307984 TTGGTCTGCGAATTTTGAGAAAAATAGGTTCGGGAGTCGGTTACGCACGAGAAAGAGTTAACACC
1 TTGGTCTGCGAATTTTGAGAAAAATAGGTTCGGGAGTCGGTTACGCACGAGAAAGAGTTAACACC
13308049 CTCGTAATGCCCAAAATTGGTACCGAATCGATTGTATAATGTCTTAATGTCAAAATTTTGAAAAG
66 CTCGTAATGCCCAAAATTGGTACCGAATCGATTGTATAATGTCTTAATGTCAAAATTTTGAAAAG
13308114 ATTTTGAAATACGATCCTTTTATTTTGAATAAAATGAATTAGACAA
131 ATTTTGAAATACGATCCTTTTATTTTGAATAAAATGAATTAGACAA
13308160 TTGGTCTGCG-ATTTTGAGAAAAATAGGTTCGGGAGTCGGTTACGCACGAGAAAGAGTTAACACC
1 TTGGTCTGCGAATTTTGAGAAAAATAGGTTCGGGAGTCGGTTACGCACGAGAAAGAGTTAACACC
13308224 CTCGTAATGCCCAAAATTGGTACCGAATCGATTGTATAATGTCTTAATGTCAAAATTTTGAAAAG
66 CTCGTAATGCCCAAAATTGGTACCGAATCGATTGTATAATGTCTTAATGTCAAAATTTTGAAAAG
13308289 ATTTTGAAATACGATCCTTTTATTTTGAATAAAATGAATTAGACAA
131 ATTTTGAAATACGATCCTTTTATTTTGAATAAAATGAATTAGACAA
13308335 T
1 T
13308336 GAGATTCACT
Statistics
Matches: 176, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
175 166 0.94
176 10 0.06
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.32
Consensus pattern (176 bp):
TTGGTCTGCGAATTTTGAGAAAAATAGGTTCGGGAGTCGGTTACGCACGAGAAAGAGTTAACACC
CTCGTAATGCCCAAAATTGGTACCGAATCGATTGTATAATGTCTTAATGTCAAAATTTTGAAAAG
ATTTTGAAATACGATCCTTTTATTTTGAATAAAATGAATTAGACAA
Found at i:13308981 original size:16 final size:16
Alignment explanation
Indices: 13308960--13309012 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
13308950 TTGGTTCGCT
*
13308960 GTAATGGAATAGAGGC
1 GTAATGGAATAGATGC
13308976 GTAATGGAATAGATGC
1 GTAATGGAATAGATGC
13308992 GTAATGGAATAGATGC
1 GTAATGGAATAGATGC
13309008 GTAAT
1 GTAAT
13309013 AGGTAATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.06, G:0.32, T:0.25
Consensus pattern (16 bp):
GTAATGGAATAGATGC
Found at i:13309082 original size:39 final size:44
Alignment explanation
Indices: 13308994--13309099 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 44
13308984 ATAGATGCGT
* *
13308994 AATGGAATAGATGCGTAATAGGTAATTCTTTTGTTTGGTTAAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--ATGG
13309040 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
*
13309079 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
13309100 CATAAGTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
39 19 0.34
40 2 0.04
43 1 0.02
44 13 0.23
45 3 0.05
46 18 0.32
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
Found at i:13309083 original size:44 final size:46
Alignment explanation
Indices: 13308994--13309086 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
13308984 ATAGATGCGT
* *
13308994 AATGGAATAGATGCGTAATAGGTAATTCTTTTGTTTGGTTAAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAAATGG
*
13309040 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAAATGG
13309084 AAT
1 AAT
13309087 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAAATGG
Found at i:13311932 original size:46 final size:46
Alignment explanation
Indices: 13311865--13311957 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
13311855 CCTCAAAGAA
*
13311865 CAAAGACTTGCAATCAGAAACTATTAGGCTTCACAGAATAAACTTT
1 CAAAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTT
*
13311911 CAAAGACTTGCAATCAGAAACTATGATGCTTCACAGAATAAACTTT
1 CAAAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTT
13311957 C
1 C
13311958 TAGGATACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (46 bp):
CAAAGACTTGCAATCAGAAACTATGAGGCTTCACAGAATAAACTTT
Found at i:13313356 original size:3 final size:3
Alignment explanation
Indices: 13313348--13313403 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
13313338 TTTAAAGTAC
13313348 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13313396 AAT AAT AA
1 AAT AAT AA
13313404 AAGGTTTAGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13313539 original size:23 final size:22
Alignment explanation
Indices: 13313492--13313540 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
13313482 GTAATCGCAT
*
13313492 TAAAATTACAACATTCAAAGGAC
1 TAAAATTACAACACTCAAA-GAC
13313515 TAAAATTACAATCAACTCAAA-AC
1 TAAAATTACAA-C-ACTCAAAGAC
13313538 TAA
1 TAA
13313541 GGACTAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 16 0.70
24 1 0.04
25 6 0.26
ACGTcount: A:0.55, C:0.18, G:0.04, T:0.22
Consensus pattern (22 bp):
TAAAATTACAACACTCAAAGAC
Found at i:13317475 original size:36 final size:36
Alignment explanation
Indices: 13317409--13317480 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
13317399 AAGCAATATC
* *
13317409 TTAATTTTATATTATTTTTATAAATATATTTGTTAT
1 TTAATTTTATATTATTTATATAAATATATTTATTAT
** *
13317445 TTAATTTT-TATATATTTATATATCTCTATTTATTAT
1 TTAATTTTATAT-TATTTATATAAATATATTTATTAT
13317481 AGTGAAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 3 0.10
36 27 0.90
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (36 bp):
TTAATTTTATATTATTTATATAAATATATTTATTAT
Found at i:13318925 original size:43 final size:42
Alignment explanation
Indices: 13318859--13318949 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 42
13318849 CACATTGCAA
* * *
13318859 TGTAATAAAAAATACAATTCATTTTCTTAATCAAGTAAATCT
1 TGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCT
* *
13318901 TGGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCT
1 T-GTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCT
13318944 TGTAAT
1 TGTAAT
13318950 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 6 0.14
43 37 0.86
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (42 bp):
TGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCT
Found at i:13324396 original size:7 final size:7
Alignment explanation
Indices: 13324386--13324419 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
13324376 TAAACCTTAA
13324386 ACCCCTG
1 ACCCCTG
13324393 ACCCCTG
1 ACCCCTG
13324400 ACCCCTG
1 ACCCCTG
13324407 ACCCCTG
1 ACCCCTG
13324414 ACCCCT
1 ACCCCT
13324420 AAACTTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.59, G:0.12, T:0.15
Consensus pattern (7 bp):
ACCCCTG
Found at i:13324599 original size:20 final size:20
Alignment explanation
Indices: 13324562--13324599 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13324552 TTAATTCATA
*
13324562 AACCTTAAACCTTGAATCCC
1 AACCTTAAACCATGAATCCC
13324582 AACCTTTAAACCAT-AATC
1 AACC-TTAAACCATGAATC
13324600 TCTAATCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.39, C:0.32, G:0.03, T:0.26
Consensus pattern (20 bp):
AACCTTAAACCATGAATCCC
Found at i:13325409 original size:18 final size:18
Alignment explanation
Indices: 13325386--13325420 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
13325376 TTACAGGGTG
13325386 TCAATTTTGGGCATCACT
1 TCAATTTTGGGCATCACT
13325404 TCAATTTTGGGCATCAC
1 TCAATTTTGGGCATCAC
13325421 ATGGGTGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (18 bp):
TCAATTTTGGGCATCACT
Found at i:13326238 original size:7 final size:7
Alignment explanation
Indices: 13326222--13326383 Score: 60
Period size: 7 Copynumber: 23.0 Consensus size: 7
13326212 TTATCATTTA
*
13326222 GTTTAGG
1 GTTTATG
13326229 GTTTATG
1 GTTTATG
*
13326236 GTTTAGG
1 GTTTATG
* *
13326243 GTATATA
1 GTTTATG
13326250 GTTTA-G
1 GTTTATG
*
13326256 GTTTAAG
1 GTTTATG
*
13326263 GTTTAGG
1 GTTTATG
13326270 AGTTACTAT-
1 -GTT--TATG
* *
13326279 -TTAAAG
1 GTTTATG
13326285 GTTTATG
1 GTTTATG
*
13326292 GATTATGG
1 GTTTAT-G
*
13326300 GTTTAGG
1 GTTTATG
*
13326307 GATTATG
1 GTTTATG
13326314 GTTTATG
1 GTTTATG
13326321 GTTTATG
1 GTTTATG
* **
13326328 GGTTGGG
1 GTTTATG
*
13326335 GTTTAGG
1 GTTTATG
* *
13326342 GGTTAGG
1 GTTTATG
* *
13326349 GGTTAAG
1 GTTTATG
* *
13326356 GGTTAGG
1 GTTTATG
*
13326363 GTTTAGG
1 GTTTATG
13326370 GTTTATG
1 GTTTATG
*
13326377 TTTTATG
1 GTTTATG
13326384 ATTCAAGGTT
Statistics
Matches: 118, Mismatches: 30, Indels: 14
0.73 0.19 0.09
Matches are distributed among these distances:
5 1 0.01
6 5 0.04
7 102 0.86
8 8 0.07
10 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.44
Consensus pattern (7 bp):
GTTTATG
Found at i:13326241 original size:14 final size:14
Alignment explanation
Indices: 13326222--13326381 Score: 87
Period size: 14 Copynumber: 11.4 Consensus size: 14
13326212 TTATCATTTA
13326222 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
* *
13326236 GTTTAGGGTATATA
1 GTTTAGGGTTTATG
*
13326250 GTTTA-GGTTTAAG
1 GTTTAGGGTTTATG
13326263 GTTTAGGAGTTACTAT-
1 GTTTAGG-GTT--TATG
* *
13326279 -TTAAAGGTTTATG
1 GTTTAGGGTTTATG
* *
13326292 GATTATGGGTTTAGG
1 GTTTA-GGGTTTATG
* *
13326307 GATTATGGTTTATG
1 GTTTAGGGTTTATG
**
13326321 GTTTATGGG-TTGGG
1 GTTTA-GGGTTTATG
* *
13326335 GTTTAGGGGTTAGGG
1 GTTTAGGGTTTA-TG
* *
13326350 GTTAAGGG-TTAGG
1 GTTTAGGGTTTATG
13326363 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
*
13326377 TTTTA
1 GTTTA
13326382 TGATTCAAGG
Statistics
Matches: 112, Mismatches: 23, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
12 3 0.03
13 22 0.20
14 55 0.49
15 30 0.27
17 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:13326304 original size:15 final size:15
Alignment explanation
Indices: 13326284--13326331 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
13326274 ACTATTTAAA
13326284 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
13326299 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
*
13326313 GGTTTATGGTTTATG
1 GGTTTATGGATTATG
13326328 GGTT
1 GGTT
13326332 GGGGTTTAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:13326325 original size:21 final size:20
Alignment explanation
Indices: 13326287--13326383 Score: 68
Period size: 21 Copynumber: 4.6 Consensus size: 20
13326277 ATTTAAAGGT
*
13326287 TTATGGATTATGGGTTTAGGG
1 TTATGGTTTAT-GGTTTAGGG
13326308 ATTATGGTTTATGGTTTATGGG
1 -TTATGGTTTATGGTTTA-GGG
** * *
13326330 TTGGGGTTTAGGGGTTAGGGG
1 TTATGGTTTATGGTTTA-GGG
* * *
13326351 TTAAGGGTTAGGGTTTAGGG
1 TTATGGTTTATGGTTTAGGG
*
13326371 TTTATGTTTTATG
1 -TTATGGTTTATG
13326384 ATTCAAGGTT
Statistics
Matches: 59, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
20 3 0.05
21 43 0.73
22 13 0.22
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.44
Consensus pattern (20 bp):
TTATGGTTTATGGTTTAGGG
Done.