Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 32 of 133
Found at i:7335025 original size:103 final size:103
Alignment explanation
Indices: 7334864--7335238 Score: 352
Period size: 103 Copynumber: 3.7 Consensus size: 103
7334854 ACCCAGATGG
* * * * * * * * *
7334864 CTAAGCCTTTGTAAATGTAATTTACCAATAAGAGCTTTTTAGCCAAGGTGA-CAAAGATGAGCTC
1 CTAAGTCTTTATAAAGGTAATTTATCAAGATGAGCTATTTGGCCAAGGTGACCAGAGATGAGCTC
* * *
7334928 TTTCGATCGAGCTAAACTTTTTTGGTCGAGGTGGCTCAA
66 TTTCGATCGAGCTGAACTCTTTTGGTCGAAGTGGC-CAA
* * * *
7334967 CTAAGTCTTTATAAAGGTAATCTATCAAGATAAGCTATTTGGCTAAGGTGA-CAGAGATGAGCTT
1 CTAAGTCTTTATAAAGGTAATTTATCAAGATGAGCTATTTGGCCAAGGTGACCAGAGATGAGCTC
** *
7335031 TTTCGATTAAGCTGAACTCTTTTGGTCGAAGTGACCCAA
66 TTTCGATCGAGCTGAACTCTTTTGGTCGAAGTG-GCCAA
* * * * *
7335070 CTAA-ACTTTTATAAAGGTAATTTAT-AAAATGACCTCTTTGGCCAAGGTGACCA-AGATAAGCT
1 CTAAGTC-TTTATAAAGGTAATTTATCAAGATGAGCTATTTGGCCAAGGTGACCAGAGATGAGCT
* * ** *
7335132 CTTTC-AGTCGAGTTGAGCTCTTTTAATCGAAGTGGCCTAG
65 CTTTCGA-TCGAGCTGAACTCTTTTGGTCGAAGTGGCC-AA
* * *
7335172 CTAAGTCTTTATGAAGGTAATTTA-CTAAGATGAGCTATTTGGCCAAGGTGATC-GAGATGAGTT
1 CTAAGTCTTTATAAAGGTAATTTATC-AAGATGAGCTATTTGGCCAAGGTGACCAGAGATGAGCT
7335235 CTTT
65 CTTT
7335239 TGGTCAAGCT
Statistics
Matches: 219, Mismatches: 44, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
101 3 0.01
102 75 0.34
103 140 0.64
104 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (103 bp):
CTAAGTCTTTATAAAGGTAATTTATCAAGATGAGCTATTTGGCCAAGGTGACCAGAGATGAGCTC
TTTCGATCGAGCTGAACTCTTTTGGTCGAAGTGGCCAA
Found at i:7335777 original size:24 final size:24
Alignment explanation
Indices: 7335740--7335793 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
7335730 GATCTGAGTT
* *
7335740 TTTTTAGTCGAGCTAAGTCTAAGC
1 TTTTTGGTCAAGCTAAGTCTAAGC
*
7335764 TTTTTGGTCAAGCTAAGTCTGAGC
1 TTTTTGGTCAAGCTAAGTCTAAGC
*
7335788 TCTTTG
1 TTTTTG
7335794 ATCGAGCTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (24 bp):
TTTTTGGTCAAGCTAAGTCTAAGC
Found at i:7335778 original size:85 final size:85
Alignment explanation
Indices: 7335590--7335778 Score: 186
Period size: 85 Copynumber: 2.2 Consensus size: 85
7335580 AGCTGAGATC
* ** * * *
7335590 AAGCTCTTTGGTCAAGCTATTTTGTTGAATTGGGTTTTTATAAAGACATTTTATAAATTTGAGCA
1 AAGCTTTTTGGTCAAGCTATTTCATCGAATTGGGCTTTTATAAAGACATTTTATAAATCTGAGCA
* * *
7335655 TTTTTGATCGAGTTGAGTTT
66 TTTTTGATCGAGCTAAGTCT
* * * * *
7335675 AAG-TTCTTTGATCGAGCTATTTCATCGAATTGGGCTTTTGTGAAAG-TATTTTATAGATCTGAG
1 AAGCTT-TTTGGTCAAGCTATTTCATCGAATTGGGCTTTTAT-AAAGACATTTTATAAATCTGAG
* *
7335738 -TTTTTTTAGTCGAGCTAAGTCT
64 CATTTTTGA-TCGAGCTAAGTCT
7335760 AAGCTTTTTGGTCAAGCTA
1 AAGCTTTTTGGTCAAGCTA
7335779 AGTCTGAGCT
Statistics
Matches: 82, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
84 7 0.09
85 69 0.84
86 6 0.07
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.44
Consensus pattern (85 bp):
AAGCTTTTTGGTCAAGCTATTTCATCGAATTGGGCTTTTATAAAGACATTTTATAAATCTGAGCA
TTTTTGATCGAGCTAAGTCT
Found at i:7335801 original size:24 final size:24
Alignment explanation
Indices: 7335747--7335801 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
7335737 GTTTTTTTAG
* *
7335747 TCGAGCTAAGTCTAAGCTTTTTGG
1 TCGAGCTAAGTCTAAGCTCTTTGA
* *
7335771 TCAAGCTAAGTCTGAGCTCTTTGA
1 TCGAGCTAAGTCTAAGCTCTTTGA
7335795 TCGAGCT
1 TCGAGCT
7335802 GTTTTATCGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (24 bp):
TCGAGCTAAGTCTAAGCTCTTTGA
Found at i:7336059 original size:84 final size:85
Alignment explanation
Indices: 7335948--7336178 Score: 252
Period size: 85 Copynumber: 2.7 Consensus size: 85
7335938 TTTACTGAGC
* *
7335948 TATCGAATTGAGCCTTTAT-AAAGGCATTTTATAGATCCAAGCTCTTTTAGTTC-AACTGAGT-A
1 TATCGAATTGGGCCTTTATGAAA-GCATTTTATAGATCCAAGCTCTTTT-GATCGAACTGAGTCA
* * *
7336010 TAGCTTTTTGGCCGAGCTATTT
64 GAGCTCTTTGGCCAAGCTATTT
* * * * *
7336032 TATCGAGTTGGGCATTTATGAAAGCATTTTATAGATCCAAACTCTTTTGATCGAGCTGAGTCCGA
1 TATCGAATTGGGCCTTTATGAAAGCATTTTATAGATCCAAGCTCTTTTGATCGAACTGAGTCAGA
7336097 GCTCTTTGGCCAAGCTATTT
66 GCTCTTTGGCCAAGCTATTT
* * * * * * * * *
7336117 AATCAAATTGGACCTTTATGAAACCATTTTGTAAATCCAAGCTTTTTTGGTCGAGCTGAGTC
1 TATCGAATTGGGCCTTTATGAAAGCATTTTATAGATCCAAGCTCTTTTGATCGAACTGAGTC
7336179 TGAATTTTTT
Statistics
Matches: 123, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
83 3 0.02
84 47 0.38
85 73 0.59
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (85 bp):
TATCGAATTGGGCCTTTATGAAAGCATTTTATAGATCCAAGCTCTTTTGATCGAACTGAGTCAGA
GCTCTTTGGCCAAGCTATTT
Found at i:7336210 original size:24 final size:24
Alignment explanation
Indices: 7336156--7336220 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
7336146 TGTAAATCCA
*
7336156 AGCTTTTTTGGTCGAGCTGAGTCTG
1 AGCTTTTTT-GTCAAGCTGAGTCTG
* * *
7336181 A-ATTTTTTGTCAAGCTGCGTTTG
1 AGCTTTTTTGTCAAGCTGAGTCTG
*
7336204 AGCTTTTTGGTCAAGCT
1 AGCTTTTTTGTCAAGCT
7336221 ATTTTGCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 13 0.39
24 19 0.58
25 1 0.03
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.43
Consensus pattern (24 bp):
AGCTTTTTTGTCAAGCTGAGTCTG
Found at i:7336556 original size:37 final size:37
Alignment explanation
Indices: 7336512--7336583 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
7336502 GGCCTAGTTG
7336512 TTTTGTCGAATTGGGCCTTTACGAAGGTATTTTGTTA
1 TTTTGTCGAATTGGGCCTTTACGAAGGTATTTTGTTA
* *
7336549 TTTTGTCGAATTGGGTCTTTACGAATGTATTTTGT
1 TTTTGTCGAATTGGGCCTTTACGAAGGTATTTTGT
7336584 AAATCTGAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.18, C:0.10, G:0.24, T:0.49
Consensus pattern (37 bp):
TTTTGTCGAATTGGGCCTTTACGAAGGTATTTTGTTA
Found at i:7337132 original size:85 final size:85
Alignment explanation
Indices: 7336987--7337166 Score: 195
Period size: 85 Copynumber: 2.1 Consensus size: 85
7336977 ATTTTGGCCA
* * * * * *
7336987 AGCTGAGTCTGAGCTTTTTGGTCGAGTTATTTTGTTCAATTGGGTCTTTTGGAAGACATTTTGTA
1 AGCTGAGTCCGAGCTTTTTGGTCAAGCTATTTTGTTCAATTGAGTCTTTTGAAAGACATTTTATA
* ** *
7337052 AATCCGAGTTTTTTTGGTTG
66 AATCCAAACTTTTTTAGTTG
* *
7337072 AGTTGAGTCCGAGCTTTTTGG-CTAAGCTATTTTGTTGAATTGAG-CATTTATGAAAG-CATTTT
1 AGCTGAGTCCGAGCTTTTTGGTC-AAGCTATTTTGTTCAATTGAGTC-TTT-TGAAAGACATTTT
*
7337134 ATAGATCCAAACTTTTTTAGTTG
63 ATAAATCCAAACTTTTTTAGTTG
7337157 AGCTGAGTCC
1 AGCTGAGTCC
7337167 AAATTCATTG
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
84 2 0.03
85 71 0.91
86 5 0.06
ACGTcount: A:0.22, C:0.12, G:0.23, T:0.43
Consensus pattern (85 bp):
AGCTGAGTCCGAGCTTTTTGGTCAAGCTATTTTGTTCAATTGAGTCTTTTGAAAGACATTTTATA
AATCCAAACTTTTTTAGTTG
Found at i:7338678 original size:3 final size:3
Alignment explanation
Indices: 7338670--7338700 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7338660 GGGTGGTCCA
7338670 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7338701 TGTTGCCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7339187 original size:15 final size:16
Alignment explanation
Indices: 7339167--7339196 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7339157 TTTATAGGCG
7339167 AATATAAAT-TTTAAA
1 AATATAAATATTTAAA
7339182 AATATAAATATTTAA
1 AATATAAATATTTAA
7339197 TATTCAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATAAATATTTAAA
Found at i:7340618 original size:17 final size:17
Alignment explanation
Indices: 7340596--7340632 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
7340586 TAATTTTTTA
7340596 TTTTGTTTATAAATAAT
1 TTTTGTTTATAAATAAT
7340613 TTTTGTTTATAAATAAT
1 TTTTGTTTATAAATAAT
7340630 TTT
1 TTT
7340633 ACTTACAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
TTTTGTTTATAAATAAT
Found at i:7342527 original size:20 final size:21
Alignment explanation
Indices: 7342499--7342542 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
7342489 ATGATAATTT
7342499 TAAATATTATATAAAAAA-ATA
1 TAAATATTATA-AAAAAATATA
7342520 TAAA-ATTATAAAAAAATATA
1 TAAATATTATAAAAAAATATA
7342540 TAA
1 TAA
7342543 TTTAAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.27
20 12 0.55
21 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAATATTATAAAAAAATATA
Found at i:7342531 original size:18 final size:18
Alignment explanation
Indices: 7342508--7342549 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
7342498 TTAAATATTA
7342508 TATAAAAAAATATAAAAT
1 TATAAAAAAATATAAAAT
*
7342526 TATAAAAAAATATATAAT
1 TATAAAAAAATATAAAAT
7342544 T-TAAAA
1 TATAAAA
7342550 TTGATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAAAAATATAAAAT
Found at i:7342549 original size:25 final size:27
Alignment explanation
Indices: 7342520--7342572 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
7342510 TAAAAAAATA
7342520 TAAAATT-ATAAAAA-AATATATAATT
1 TAAAATTGATAAAAATAATATATAATT
*
7342545 TAAAATTGATAAAAATTATATATAATT
1 TAAAATTGATAAAAATAATATATAATT
7342572 T
1 T
7342573 TGATATGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 7 0.28
26 7 0.28
27 11 0.44
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
TAAAATTGATAAAAATAATATATAATT
Found at i:7344109 original size:3 final size:3
Alignment explanation
Indices: 7344098--7344127 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
7344088 GTAGTAGTGC
*
7344098 AGG AAG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
7344128 CATGAGTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:7348786 original size:21 final size:21
Alignment explanation
Indices: 7348760--7348800 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
7348750 CTATTTGCGT
7348760 TCCTGCAATTGGTTTTATCTG
1 TCCTGCAATTGGTTTTATCTG
7348781 TCCTGCAATTGGTTTTATCT
1 TCCTGCAATTGGTTTTATCT
7348801 TTGCAGCGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.49
Consensus pattern (21 bp):
TCCTGCAATTGGTTTTATCTG
Found at i:7360456 original size:21 final size:19
Alignment explanation
Indices: 7360424--7360467 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
7360414 TATTTATATA
* *
7360424 TATTAAGTATATAAAATTTT
1 TATTAAATATAT-AAATTAT
7360444 TATTAAATAATATAAATTAT
1 TATTAAAT-ATATAAATTAT
7360464 TATT
1 TATT
7360468 TTAGATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TATTAAATATATAAATTAT
Found at i:7360525 original size:23 final size:24
Alignment explanation
Indices: 7360482--7360528 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
7360472 ATTAATTAAA
*
7360482 ATTAATATATTTTTATTTAAAAAAT
1 ATTAATATATATTTA-TTAAAAAAT
7360507 ATTAATATATATTTA-TAAAAAA
1 ATTAATATATATTTATTAAAAAA
7360529 GTTATCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTAATATATATTTATTAAAAAAT
Found at i:7361570 original size:2 final size:2
Alignment explanation
Indices: 7361563--7361590 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7361553 GTGCGTATGT
7361563 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7361591 ATCCATCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7363758 original size:13 final size:13
Alignment explanation
Indices: 7363740--7363765 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7363730 AAAAAAGTAT
7363740 TATATAATAAAAA
1 TATATAATAAAAA
7363753 TATATAATAAAAA
1 TATATAATAAAAA
7363766 ATAGATCCAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TATATAATAAAAA
Found at i:7366290 original size:2 final size:2
Alignment explanation
Indices: 7366283--7366308 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7366273 AATGATGCTA
7366283 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
7366309 TCTCATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7370007 original size:109 final size:109
Alignment explanation
Indices: 7369815--7370030 Score: 369
Period size: 109 Copynumber: 2.0 Consensus size: 109
7369805 GGAAAAAGTT
* * * * *
7369815 TTCATGATATGGTTGGGAATGGTACTTAATGGATTTTTCTCTTCTCAATTTCTTTGCCTAAAGTT
1 TTCATGATATGGTTGGGAATGGTACTTAATGGACTTTTATCTTCTCAATTCCTTTGCCTAAACTC
7369880 TTTGTTGTTTCCTATTCTTTTTGGAGCTGTAATTTTTGGTTATA
66 TTTGTTGTTTCCTATTCTTTTTGGAGCTGTAATTTTTGGTTATA
7369924 TTCATGATATGGTTGGGAATGGTACTTAATGGACTTTTATCTTCTCAATTCCTTTGCCTAAACTC
1 TTCATGATATGGTTGGGAATGGTACTTAATGGACTTTTATCTTCTCAATTCCTTTGCCTAAACTC
* *
7369989 TTTGTTGTTTCCTTTTCTTTTTGTAGCTGTAATTTTTGGTTA
66 TTTGTTGTTTCCTATTCTTTTTGGAGCTGTAATTTTTGGTTA
7370031 GATAAGTAGT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 100 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.51
Consensus pattern (109 bp):
TTCATGATATGGTTGGGAATGGTACTTAATGGACTTTTATCTTCTCAATTCCTTTGCCTAAACTC
TTTGTTGTTTCCTATTCTTTTTGGAGCTGTAATTTTTGGTTATA
Found at i:7373111 original size:2 final size:2
Alignment explanation
Indices: 7373098--7373127 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7373088 AATCAAACCC
*
7373098 AT AT AC 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
7373128 TAATTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7374173 original size:41 final size:42
Alignment explanation
Indices: 7374089--7374173 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 42
7374079 ATGTTAAAAC
7374089 TCACTTATTCTCTTTCATTTCTTAATTTTTTTCATTCCTATCA
1 TCACTTATTCTCTTTCATTTCTTAA-TTTTTTCATTCCTATCA
*
7374132 TCACTTATTCTCTTTCTTTTCTTAA-TTTTTCATTCCTATCA
1 TCACTTATTCTCTTTCATTTCTTAATTTTTTCATTCCTATCA
7374173 T
1 T
7374174 AGTTTTTGTC
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 17 0.41
43 24 0.59
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.59
Consensus pattern (42 bp):
TCACTTATTCTCTTTCATTTCTTAATTTTTTCATTCCTATCA
Found at i:7375234 original size:61 final size:58
Alignment explanation
Indices: 7375169--7375361 Score: 140
Period size: 61 Copynumber: 3.1 Consensus size: 58
7375159 AAATGTCTTA
7375169 AATAATCTTTTACAAAAATTTAATTGAGTTATTCAAGGTGTTTCTAGCCAAAAATACCTTG
1 AATAATCTTTTA-AAAAATTTAATTGAGTTATTCAAGGT-TTTCTAGCCAAAAA-ACCTTG
* ** * *
7375230 AATAATCCTTT--AATTTTTTATTGGAGATTATTCAAGGTATTT-TTGCCTAGAAAACACCTTG
1 AATAATCTTTTAAAAAATTTAATT-GAG-TTATTCAAGGT-TTTCTAGCC-A-AAAA-ACCTTG
* * * * * *
7375291 AATAATCCATTATAAAAAATTTAATGGGGTTATTGAATGCATTTTCTAGCCAAAAAAGCCTTC
1 AATAAT-C-TTTTAAAAAATTTAATTGAGTTATTCAA-G-GTTTTCTAGCCAAAAAA-CCTTG
7375354 AATAATCT
1 AATAATCT
7375362 CTTTTAATTT
Statistics
Matches: 102, Mismatches: 18, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
58 8 0.08
59 7 0.07
60 15 0.15
61 27 0.26
62 3 0.03
63 23 0.23
64 7 0.07
65 12 0.12
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (58 bp):
AATAATCTTTTAAAAAATTTAATTGAGTTATTCAAGGTTTTCTAGCCAAAAAACCTTG
Found at i:7375461 original size:62 final size:60
Alignment explanation
Indices: 7375197--7375470 Score: 171
Period size: 62 Copynumber: 4.4 Consensus size: 60
7375187 TTTAATTGAG
** * *
7375197 TTATTCAAGGTGTTTCTAGCCAAAAATACCTTGAATAA-TCCTTTAATTTTTTATTGGAGA
1 TTATTCAAGGCATTTTTA-CCAAAAATACCTTGAATAATTCATTTAATTTTTTATTGGAGA
* * * * *** * *
7375257 TTATTCAAGGTATTTTTGCCTAGAAAACACCTTGAATAATCCATTATAAAAAATTTAATGG-GG
1 TTATTCAAGGCATTTTTACC-A-AAAATACCTTGAATAATTCATT-T-AATTTTTTATTGGAGA
* * * * * * *
7375320 TTATTGAATGCATTTTCTAGCCAAAAA-AGCCTTCAATAATCTCTTTTAA-TTTTAATAAGGTGA
1 TTATTCAAGGCATTTT-TA-CCAAAAATA-CCTTGAATAAT-TCATTTAATTTTTTAT-TGGAGA
** * *
7375383 TTATTCAAGGTGTTTTTGACCAAAAATGCCTTGAATAATTTCATTCAATTTTTTATTAGG-GA
1 TTATTCAAGGCATTTTT-ACCAAAAATACCTTGAATAA-TTCATTTAATTTTTTATT-GGAGA
7375445 TTATTCAAGGCATTTTTACCTAAAAA
1 TTATTCAAGGCATTTTTACC-AAAAA
7375471 ATTTCATGAA
Statistics
Matches: 161, Mismatches: 36, Indels: 32
0.70 0.16 0.14
Matches are distributed among these distances:
59 2 0.01
60 16 0.10
61 21 0.13
62 53 0.33
63 53 0.33
64 14 0.09
65 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (60 bp):
TTATTCAAGGCATTTTTACCAAAAATACCTTGAATAATTCATTTAATTTTTTATTGGAGA
Found at i:7378159 original size:3 final size:3
Alignment explanation
Indices: 7378146--7378179 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
7378136 GTTTAATATT
7378146 ATA ATTA ATA ATA ATA ATA ATA ATA A-A ATA ATA A
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7378180 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7378623 original size:18 final size:20
Alignment explanation
Indices: 7378589--7378625 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7378579 CCAGAATATA
7378589 AAAAAAAAAGAGAACAAACT
1 AAAAAAAAAGAGAACAAACT
7378609 AAAAAAAAA-AG-ACAAAC
1 AAAAAAAAAGAGAACAAAC
7378626 ACAGTCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.78, C:0.11, G:0.08, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAGAGAACAAACT
Found at i:7379712 original size:16 final size:16
Alignment explanation
Indices: 7379693--7379854 Score: 159
Period size: 16 Copynumber: 10.2 Consensus size: 16
7379683 CTAGGTTTCT
*
7379693 AAAACCCCTAAAATTC
1 AAAACCCCTAAAATCC
7379709 AAAATCCCCTTAAAATCC
1 AAAA-CCCC-TAAAATCC
* *
7379727 AAAA-TCCTAAAATTC
1 AAAACCCCTAAAATCC
* *
7379742 GAAACCCCTAAAATCT
1 AAAACCCCTAAAATCC
* *
7379758 AAAATCCCTTAAATCC
1 AAAACCCCTAAAATCC
* *
7379774 AAACCCCCAAAAATCC
1 AAAACCCCTAAAATCC
* *
7379790 GAAACCCCAAAAATCC
1 AAAACCCCTAAAATCC
*
7379806 GAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
7379822 -AAACCCC-AAAATCT
1 AAAACCCCTAAAATCC
*
7379836 AAAATCCCTAAAATCC
1 AAAACCCCTAAAATCC
7379852 AAA
1 AAA
7379855 CTCTTAAATC
Statistics
Matches: 120, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
14 6 0.05
15 23 0.19
16 76 0.63
17 4 0.03
18 11 0.09
ACGTcount: A:0.49, C:0.33, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:7379864 original size:30 final size:28
Alignment explanation
Indices: 7379783--7379875 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 28
7379773 CAAACCCCCA
*
7379783 AAAATCCGAAACCCCAAAAATCCGAAACCCCT
1 AAAATCC-AAACCCC-AAAAT-C-AAAACCCT
7379815 AAAATCCAAACCCCAAAATCTAAAATCCCT
1 AAAATCCAAACCCCAAAATC-AAAA-CCCT
* **
7379845 AAAATCCAAACTCTTAAATCAAAACCCT
1 AAAATCCAAACCCCAAAATCAAAACCCT
7379873 AAA
1 AAA
7379876 CCACAAAACC
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
28 7 0.13
29 8 0.15
30 26 0.47
31 7 0.13
32 7 0.13
ACGTcount: A:0.51, C:0.32, G:0.02, T:0.15
Consensus pattern (28 bp):
AAAATCCAAACCCCAAAATCAAAACCCT
Found at i:7379883 original size:51 final size:50
Alignment explanation
Indices: 7379822--7379928 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 50
7379812 CCTAAAATCC
* * *
7379822 AAACCCCAAAATCTAAAATCCCTAAAA-TCCAAACTCTTAAATCAAAACCCT
1 AAACCACAAAA-CCAAAA-CCCTAAAACTCCAAACTCTAAAATCAAAACCCT
* *
7379873 AAACCACAAAACCCAAACCCTAAAATCTCCAAACTCTAAAATCAAAACCTT
1 AAACCACAAAACCAAAACCCTAAAA-CTCCAAACTCTAAAATCAAAACCCT
7379924 AAACC
1 AAACC
7379929 TTTTATATCC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
49 8 0.16
50 4 0.08
51 37 0.76
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (50 bp):
AAACCACAAAACCAAAACCCTAAAACTCCAAACTCTAAAATCAAAACCCT
Found at i:7379906 original size:16 final size:16
Alignment explanation
Indices: 7379885--7379915 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7379875 ACCACAAAAC
7379885 CCAAACCCTAAAATCT
1 CCAAACCCTAAAATCT
*
7379901 CCAAACTCTAAAATC
1 CCAAACCCTAAAATC
7379916 AAAACCTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.19
Consensus pattern (16 bp):
CCAAACCCTAAAATCT
Found at i:7381821 original size:19 final size:18
Alignment explanation
Indices: 7381781--7381832 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 18
7381771 AATAATATTT
*
7381781 AACAAAACAAAC-AAAAA
1 AACAAAAAAAACAAAAAA
* *
7381798 AACAAACAAAATAAAAACA
1 AACAAAAAAAACAAAAA-A
7381817 AACAAAAAAAACAAAA
1 AACAAAAAAAACAAAA
7381833 CAGAAATCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 9 0.32
18 4 0.14
19 15 0.54
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (18 bp):
AACAAAAAAAACAAAAAA
Found at i:7383307 original size:16 final size:15
Alignment explanation
Indices: 7383286--7383380 Score: 66
Period size: 16 Copynumber: 5.9 Consensus size: 15
7383276 AAACTCCTAA
7383286 AAATCCAAAATCTCTT
1 AAATCCAAAATC-CTT
*
7383302 AAATCC-AAATCCCATA
1 AAATCCAAAAT-CC-TT
*
7383318 AAATTCAAAATCCATT
1 AAATCCAAAATCC-TT
* **
7383334 AAATCCAAAACCCCCCG
1 AAATCCAAAA--TCCTT
7383351 AAATCCAAAATCCTT
1 AAATCCAAAATCCTT
*
7383366 GAAATCCAAAGTCCT
1 -AAATCCAAAATCCT
7383381 AAAAAAAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
15 7 0.11
16 39 0.63
17 14 0.23
18 2 0.03
ACGTcount: A:0.45, C:0.29, G:0.03, T:0.22
Consensus pattern (15 bp):
AAATCCAAAATCCTT
Found at i:7383320 original size:33 final size:31
Alignment explanation
Indices: 7383285--7383375 Score: 101
Period size: 32 Copynumber: 2.8 Consensus size: 31
7383275 AAAACTCCTA
*
7383285 AAAATCCAAAATCTCTTAAATCCAAATCCCAT
1 AAAATCCAAAATC-CTTAAATCCAAAACCCAT
* **
7383317 AAAATTCAAAATCCATTAAATCCAAAACCCCCC
1 AAAATCCAAAATCC-TTAAATCCAAAA-CCCAT
*
7383350 GAAATCCAAAATCCTTGAAATCCAAA
1 AAAATCCAAAATCCTT-AAATCCAAA
7383376 GTCCTAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
31 1 0.02
32 25 0.50
33 24 0.48
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (31 bp):
AAAATCCAAAATCCTTAAATCCAAAACCCAT
Found at i:7385090 original size:15 final size:16
Alignment explanation
Indices: 7385064--7385093 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7385054 TGGACTAATC
7385064 TTCAACAAAAAAAACT
1 TTCAACAAAAAAAACT
7385080 TTCAA-AAAAAAAAC
1 TTCAACAAAAAAAAC
7385094 CTAAAGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (16 bp):
TTCAACAAAAAAAACT
Found at i:7387472 original size:18 final size:18
Alignment explanation
Indices: 7387449--7387497 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
7387439 ATTTTATTAT
*
7387449 AATTTAATAATATTATAC
1 AATTTAATAATATTATAA
*
7387467 AATTT-AT-ATATTTTAA
1 AATTTAATAATATTATAA
*
7387483 AATTAAATAATATTA
1 AATTTAATAATATTA
7387498 ATTTATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 11 0.44
17 4 0.16
18 10 0.40
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTAATAATATTATAA
Found at i:7395162 original size:2 final size:2
Alignment explanation
Indices: 7395155--7395185 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7395145 GTCAGGCTCG
7395155 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
7395186 CGGATTGACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:7396044 original size:22 final size:22
Alignment explanation
Indices: 7395998--7396044 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7395988 AAATTAAAAT
* * *
7395998 TTTAATAAAAATTATATATAAA
1 TTTAATAAAAATAAAAAATAAA
*
7396020 TTTAATAAAAATAAAAAATATA
1 TTTAATAAAAATAAAAAATAAA
7396042 TTT
1 TTT
7396045 TATATTTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAATAAAAATAAAAAATAAA
Found at i:7400671 original size:13 final size:13
Alignment explanation
Indices: 7400648--7400705 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
7400638 AATATCAAAT
7400648 TCAAATAACATCCA
1 TCAAAT-ACATCCA
7400662 TCAAATACAT-CA
1 TCAAATACATCCA
7400674 T-AAA-ACATCCA
1 TCAAATACATCCA
* *
7400685 T-AGGATCCATCCA
1 TCA-AATACATCCA
7400698 TCAAATAC
1 TCAAATAC
7400706 CTCATACAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
10 4 0.11
11 7 0.19
12 4 0.11
13 14 0.39
14 7 0.19
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.22
Consensus pattern (13 bp):
TCAAATACATCCA
Found at i:7403576 original size:9 final size:10
Alignment explanation
Indices: 7403558--7403620 Score: 54
Period size: 12 Copynumber: 5.7 Consensus size: 10
7403548 AATTAGTCCA
7403558 TTTTATTTTT
1 TTTTATTTTT
7403568 TTTTATTTTT
1 TTTTATTTTT
7403578 TTGGTTATTTGTT
1 TT--TTATTT-TT
**
7403591 TTGAATTTTAT
1 TTTTATTTT-T
7403602 TTTTATTTTAAT
1 TTTTATTTT--T
7403614 TTTTATT
1 TTTTATT
7403621 CTAGAAGATA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
10 13 0.30
11 12 0.27
12 15 0.34
13 4 0.09
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:7404390 original size:3 final size:3
Alignment explanation
Indices: 7404371--7404414 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
7404361 TGTTGTTTAT
* *
7404371 TTA TTA ATA TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7404415 TTACCAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:7404560 original size:59 final size:59
Alignment explanation
Indices: 7404492--7404803 Score: 273
Period size: 59 Copynumber: 5.2 Consensus size: 59
7404482 TGATCTCTTT
*
7404492 AAAATAAAATTTTTAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAATTTTTAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTA
* ** *
7404551 AAAATAAAATTTTT-AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTTTTT
1 AAAATAAAATTTTTAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTA
* *
7404609 AAAAT-AAATTTTCTAAAAAATATTTCCACAAATATTTTTG-AG-GAA-TTGAAAGTGTCAATTT
1 AAAATAAAATTTT-T----AA-A-----A-AAATATTTTTGAAGAAAAGTTGAAAGTATCAATTT
*
7404670 TTCTTA
54 TCCTTA
* * * *
7404676 AAAATAAAATTTCTAAAAAAA-AGCATTTTG-AGAAAAAGTTG-GAGTACCAATTTTCCTTA
1 AAAATAAAATTTTTAAAAAAATA--TTTTTGAAG-AAAAGTTGAAAGTATCAATTTTCCTTA
** *
7404735 AAAATAAAATTTAAAAAAAAAACATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAATAAAATTT-TTAAAAAAATATTTTTGAA-GAAAAGTTGAAAGTATCAATTTTCCTTA
7404795 AAAATAAAA
1 AAAATAAAA
7404804 AAAAAAACCT
Statistics
Matches: 208, Mismatches: 21, Indels: 47
0.75 0.08 0.17
Matches are distributed among these distances:
55 1 0.00
56 3 0.01
57 15 0.07
58 46 0.22
59 55 0.26
60 36 0.17
61 1 0.00
62 1 0.00
63 3 0.01
64 1 0.00
67 25 0.12
68 8 0.04
69 2 0.01
70 11 0.05
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (59 bp):
AAAATAAAATTTTTAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTA
Found at i:7404586 original size:58 final size:58
Alignment explanation
Indices: 7404492--7404803 Score: 263
Period size: 58 Copynumber: 5.2 Consensus size: 58
7404482 TGATCTCTTT
* *
7404492 AAAATAAAATTTTTAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAATTTTT-AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTA
** *
7404551 AAAATAAAATTTTTAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTTTTT
1 AAAATAAAATTTTTAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTA
** * * *
7404609 AAAAT-AAATTTTCTAAAAAATA-TTTCCACAAATATTTTTGAGGAATTGAAAGTGTCAATTTTT
1 AAAATAAAATTTT-TAAAAAATATTTTTGA-AAA-A------A--AGTTGAAAGTATCAATTTTC
7404672 CTTA
55 CTTA
* * * * * *
7404676 AAAATAAAATTTCTAAAAAAAAGCATTTTGAGAAAAAGTTG-GAGTACCAATTTTCCTTA
1 AAAATAAAATTTTTAAAAAATA--TTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTA
** * *
7404735 AAAATAAAATTTAAAAAAAAAACATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAATAAAATTT--TTAAAAAATATTTTTGAA-AAAAAGTTGAAAGTATCAATTTTCCTTA
7404795 AAAATAAAA
1 AAAATAAAA
7404804 AAAAAAACCT
Statistics
Matches: 206, Mismatches: 28, Indels: 37
0.76 0.10 0.14
Matches are distributed among these distances:
57 11 0.05
58 58 0.28
59 53 0.26
60 29 0.14
61 7 0.03
62 1 0.00
65 1 0.00
67 33 0.16
68 7 0.03
69 2 0.01
70 4 0.02
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (58 bp):
AAAATAAAATTTTTAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTA
Found at i:7404736 original size:125 final size:129
Alignment explanation
Indices: 7404510--7404803 Score: 316
Period size: 125 Copynumber: 2.4 Consensus size: 129
7404500 ATTTTTAAAA
* * * *
7404510 AAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTTAAAAAATATT
1 AAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTAAAAAAAAAT
* * *
7404575 TTTGAAAAAAAGTTGAAAGTATCAATTTTT-TTTTAAAATAAATTTTCTAAAAAATATTTCCAC
66 TTTGAAAAAAAGTTGAAAGTACCAATTTTTCCTTAAAAATAAATTTTCTAAAAAATATTTCCAC
* * *
7404638 AAATATTTTTG-AG-GAA-TTGAAAGTGTCAATTTTTCTTAAAAATAAAATTTCTAAAAAAAAGC
1 AAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTAAAAAAAA--
* * *
7404700 ATTTTGAGAAAAAGTTG-GAGTACCAA-TTTTCCTTAAAAATAAA-ATT-T-AAAAA-A-----A
64 ATTTTGAAAAAAAGTTGAAAGTACCAATTTTTCCTTAAAAATAAATTTTCTAAAAAATATTTCCA
7404754 -
129 C
*
7404754 AAACATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA
1 AAATATTTTTGAA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA
7404804 AAAAAAACCT
Statistics
Matches: 142, Mismatches: 17, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
116 10 0.07
117 2 0.01
118 2 0.01
119 29 0.20
122 1 0.01
123 5 0.04
124 1 0.01
125 45 0.32
126 19 0.13
127 17 0.12
128 11 0.08
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (129 bp):
AAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCTAAAAAAAAAT
TTTGAAAAAAAGTTGAAAGTACCAATTTTTCCTTAAAAATAAATTTTCTAAAAAATATTTCCAC
Found at i:7410409 original size:16 final size:16
Alignment explanation
Indices: 7410388--7410420 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7410378 AGAAATGCTG
7410388 GAAAAGGGCT-AGAAAA
1 GAAAA-GGCTAAGAAAA
7410404 GAAAAGGCTAAGAAAA
1 GAAAAGGCTAAGAAAA
7410420 G
1 G
7410421 TGAAAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.58, C:0.06, G:0.30, T:0.06
Consensus pattern (16 bp):
GAAAAGGCTAAGAAAA
Found at i:7416203 original size:41 final size:43
Alignment explanation
Indices: 7416047--7416321 Score: 337
Period size: 41 Copynumber: 6.4 Consensus size: 43
7416037 GAATGACCAT
* * *
7416047 TTTATTTTTTCAAAGTTGTGG-TACCTCTGTCTAAAGGAGCAA
1 TTTATTTTTTCAAAGTTGTGGTTGCCTCTGTTTAGAGGAGCAA
*
7416089 TTTATTTTTTTCAAAAGTTGTGGTTGCCTCTATTTAGAGGAGCAA
1 TTTA-TTTTTTC-AAAGTTGTGGTTGCCTCTGTTTAGAGGAGCAA
*
7416134 TTTATTTTTTCAAAAGTTGTGATTGCCTCTGTTTAGAGGAGCAA
1 TTTATTTTTTC-AAAGTTGTGGTTGCCTCTGTTTAGAGGAGCAA
* *
7416178 -CTATTTTTT-AAAGTTGTGGTTGCCTCTGTTTAGAGAAGCAA
1 TTTATTTTTTCAAAGTTGTGGTTGCCTCTGTTTAGAGGAGCAA
* * *
7416219 TTTA--TTTTCAAAGTCGTGGTTGCCTCTTTTTAGAGGAGTAA
1 TTTATTTTTTCAAAGTTGTGGTTGCCTCTGTTTAGAGGAGCAA
* * *
7416260 TTTA-TTTTTCAAAAATTGTGGTTACCTCTGTTTAAAGGAGCAA
1 TTTATTTTTTC-AAAGTTGTGGTTGCCTCTGTTTAGAGGAGCAA
* *
7416303 TTTATTATTCCAAAGTTGT
1 TTTATTTTTTCAAAGTTGT
7416322 TGAGCCTTTG
Statistics
Matches: 202, Mismatches: 23, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
40 4 0.02
41 62 0.31
42 11 0.05
43 52 0.26
44 52 0.26
45 21 0.10
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.43
Consensus pattern (43 bp):
TTTATTTTTTCAAAGTTGTGGTTGCCTCTGTTTAGAGGAGCAA
Found at i:7416334 original size:126 final size:126
Alignment explanation
Indices: 7416052--7416337 Score: 328
Period size: 126 Copynumber: 2.2 Consensus size: 126
7416042 ACCATTTTAT
* * * * *
7416052 TTTTTCAAAGTTGTGGTA-CCTCTGTCTAAAGGAGCAATTTATTTTTTTCAAAAGTTGTGGTTGC
1 TTTTCCAAAGTTGTGGTAGCCTCTGTTTAGAGAAGC-A---ATTTTTTTCAAAAGTCGTGGTTGC
* * *
7416116 CTCTATTTAGAGGAGCAATTTATTTTTTCAAAAGTTGTGATTGCCTCTGTTTAGAGGAGCAACTA
62 CTCTATTTAGAGGAGCAATTTATTTTTTCAAAAATTGTGATTACCTCTGTTTAAAGGAGCAACTA
** *
7416181 TTTTTTAAAGTTGTGGTTGCCTCTGTTTAGAGAAGCAATTTATTTTC-AAAGTCGTGGTTGCCTC
1 TTTTCCAAAGTTGTGGTAGCCTCTGTTTAGAGAAGCAATTT-TTTTCAAAAGTCGTGGTTGCCTC
* * * *
7416245 TTTTTAGAGGAGTAATTTA-TTTTTCAAAAATTGTGGTTACCTCTGTTTAAAGGAGCAATTTA
65 TATTTAGAGGAGCAATTTATTTTTTCAAAAATTGTGATTACCTCTGTTTAAAGGAGCAA-CTA
* *
7416307 TTATTCCAAAGTTGTTG-AGCCTTTGTTTAGA
1 TT-TTCCAAAGTTGTGGTAGCCTCTGTTTAGA
7416338 TGAGCTTTAT
Statistics
Matches: 135, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
125 35 0.26
126 53 0.39
127 16 0.12
129 17 0.13
130 14 0.10
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (126 bp):
TTTTCCAAAGTTGTGGTAGCCTCTGTTTAGAGAAGCAATTTTTTTCAAAAGTCGTGGTTGCCTCT
ATTTAGAGGAGCAATTTATTTTTTCAAAAATTGTGATTACCTCTGTTTAAAGGAGCAACTA
Found at i:7416532 original size:11 final size:11
Alignment explanation
Indices: 7416516--7416548 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
7416506 CAAATTAGCC
7416516 CATTTTATTTT
1 CATTTTATTTT
7416527 CATTTTATTTT
1 CATTTTATTTT
7416538 -ATTTT-TTTT
1 CATTTTATTTT
7416547 CA
1 CA
7416549 ATTATCTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.19
10 6 0.29
11 11 0.52
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (11 bp):
CATTTTATTTT
Found at i:7417541 original size:59 final size:59
Alignment explanation
Indices: 7417473--7417788 Score: 294
Period size: 59 Copynumber: 5.2 Consensus size: 59
7417463 TGATCTCTTT
*** * * *
7417473 AAAATAAAATTTTTTTAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTG
1 AAAATAAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
* **
7417532 AAAATAAAA-TTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTTTTAAATA
1 AAAATAAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA---TTTTCCT---T-
7417596 A
59 A
* *
7417597 AAAATAAAAATTTTCAAAATAAAAATAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAAT-AAAATTTTC--AA-AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
* *
7417660 AAAATAAAATTTTCAAAAAAAGCA-TTTTGAGGAAAAGTTGAAAGTACCAATTTTCCTTA
1 AAAATAAAATTTTCAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
** * * * * * *
7417719 AAAATAAAATTCTAAAAAAAAAACATTTTTAAGAAAAAATTGAAAATATCAATTTTTCTTA
1 AAAATAAAATT-T-TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
*
7417780 AAAAAAAAA
1 AAAATAAAA
7417789 AAAGAAAACC
Statistics
Matches: 219, Mismatches: 22, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
58 36 0.16
59 58 0.26
60 6 0.03
61 49 0.22
62 9 0.04
63 6 0.03
64 2 0.01
65 5 0.02
66 4 0.02
67 10 0.05
69 1 0.00
70 33 0.15
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.35
Consensus pattern (59 bp):
AAAATAAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
Found at i:7417724 original size:129 final size:128
Alignment explanation
Indices: 7417488--7417727 Score: 347
Period size: 129 Copynumber: 1.9 Consensus size: 128
7417478 AAAATTTTTT
* * * *
7417488 TAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAATTTCTAAAAAAT
1 TAAAAATAGTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAC
* ** **
7417553 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTTTTAAATAAAAAATAAAAATTTTCAAAA
66 ATTTTTGAGGAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAAAATAAAAATTTTCAAAA
* * *
7417616 TAAAAATAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCAAAAAAA
1 TAAAAATAGTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAA-TTTCAAAAAAA
7417681 GCA-TTTTGAGGAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAA
65 -CATTTTTGAGGAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAA
7417728 TTCTAAAAAA
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
128 48 0.49
129 49 0.50
130 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (128 bp):
TAAAAATAGTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAC
ATTTTTGAGGAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAAAATAAAAATTTTCAAAA
Found at i:7420796 original size:27 final size:27
Alignment explanation
Indices: 7420758--7420812 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 27
7420748 AGTGCAAATG
7420758 ATTCATGGCTAT-TATTGAAATGTTTCC
1 ATTCATGGCTATGT-TTGAAATGTTTCC
7420785 ATTCATGGCTATGTTTGAAATGTTTCC
1 ATTCATGGCTATGTTTGAAATGTTTCC
7420812 A
1 A
7420813 AACTTCACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (27 bp):
ATTCATGGCTATGTTTGAAATGTTTCC
Found at i:7422671 original size:28 final size:29
Alignment explanation
Indices: 7422606--7422671 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 29
7422596 AAAAATAAAT
* *
7422606 TACTCAAC-AAATAAAAAAAACTTAATAG
1 TACTCAACAAAATAAAAAAAACTTAACAA
* *
7422634 TAAT-AA-AAAATTAAAAAAA-TTAACAA
1 TACTCAACAAAATAAAAAAAACTTAACAA
7422660 TACTCAACAAAA
1 TACTCAACAAAA
7422672 AATCCAACAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
26 8 0.27
27 15 0.50
28 7 0.23
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.21
Consensus pattern (29 bp):
TACTCAACAAAATAAAAAAAACTTAACAA
Found at i:7423122 original size:514 final size:515
Alignment explanation
Indices: 7422211--7423225 Score: 1495
Period size: 514 Copynumber: 2.0 Consensus size: 515
7422201 CATAATACAC
* * *
7422211 ATTCACAGATAAATTATGAAAAAAAGAATAAAATATAGCAATTAAGTTTATTTATATTAAGTTTG
1 ATTCACAGATAAATTATGAAAAAAAGAATAAAATAGAACAATTAAGTTTATTTATATCAAGTTTG
*
7422276 ATCAATACAGTAAAATCAAAATATTTCAATAATTAGTAATATATAAGTTTCACTAAACTATCAAA
66 ATCAATACAATAAAATCAAAATATTTCAATAATTAGTAATATATAAGTTTCACTAAACTATCAAA
* * *
7422341 TATATAAATTACTCTAAAACAAATATAAGTCTTATTCTATATCAAACCCAATTATAACCTCAAAT
131 TATATAAATTACTCCAAAACAAATATAAATCTTATTCTACATCAAACCCAATTATAACCTCAAAT
*
7422406 CAACATAAATAATTTTAATTTCTATAATTATTATTAAAATTTAGAAAATATTAAATATAAAACAT
196 CAACATAAATAATTTTAATTTCTATAATTATGATTAAAATTTAGAAAATATTAAATATAAAACAT
* * *
7422471 CCAACAAATTATATATAAATCTCAATACATATTAAATCCAAATTAACCAATATAAATCTTACACA
261 CCAACAAAATATATATAAATCTCAATACACATTAAACCCAAATTAACCAATATAAATCTTACACA
* ** *
7422536 TCTAAAAGCTAATATTTCTATAACAAAACCCAACAAATCTCAATAATACTTTCACAAATAAAAAA
326 TCTAAAAGCTAAGAAATCTATAACAAAACCCAACAAATCTCAACAATACTTTCACAAATAAAAAA
* * * * *
7422601 TAAATTACTCAACAAATAAAAAAA-ACTTAATAGTAAT-AAAA-AATTAAAAAAATTAACAATAC
391 TAAATTACTCAACAAATAAAAAAATACTCAACAATAATAAAAATAAATAAAAAAA-TAAAAATAC
7422663 TCAACAAAAAATCCAACAAAAATATATAA-C-TAACAAATTTCAACACACATTTATAACATGT
455 T-AA-AAAAAATCCAACAAAAATATATAACCATAACAAATTTCAACACACATTTATAACATGT
* * *
7422724 ATTCACTGATAGATTATGGAAAAGAAGAATAAAATAGAACAATTTAA-TTTATTTATATCAAGTT
1 ATTCACAGATAAATTAT-GAAAAAAAGAATAAAATAGAACAA-TTAAGTTTATTTATATCAAGTT
* * * * * *
7422788 TGATCACTATAATAAAATCATAATATTTTAATAATTGGTAATATAT-AGATTTCATTAAACTATC
64 TGATCAATACAATAAAATCAAAATATTTCAATAATTAGTAATATATAAG-TTTCACTAAACTATC
* * * *
7422852 AAATATATAAATTACTCCAATATAAATATAAATCTTATTCTACATCAAACCCAATTATAACGTTA
128 AAATATATAAATTACTCCAAAACAAATATAAATCTTATTCTACATCAAACCCAATTATAACCTCA
*
7422917 AATTAACATAAATAATTTTAATTTCTATAATTATGATTAAAATTTAGAAAATATTAAATATAAAA
193 AATCAACATAAATAATTTTAATTTCTATAATTATGATTAAAATTTAGAAAATATTAAATATAAAA
* * * * *
7422982 CATCCATCAAAATCTATATAAATCTCAATGCACATTATACCCAAATTAACCTATATAAATCTTAC
258 CATCCAACAAAATATATATAAATCTCAATACACATTAAACCCAAATTAACCAATATAAATCTTAC
* * * *
7423047 ACATTTAAAAGTTAAGAAATCTATAACAAAACCCAACAAATTTCAACAATATTTTCACAAATAAA
323 ACATCTAAAAGCTAAGAAATCTATAACAAAACCCAACAAATCTCAACAATACTTTCACAAATAAA
*
7423112 AAATAAATTACTCAACAAATAAAAAAATTCCTCAACAATAATAAAAATAAATAAAAAAATAAAAA
388 AAATAAATTACTCAACAAATAAAAAAA-TACTCAACAATAATAAAAATAAATAAAAAAATAAAAA
* *
7423177 TACTTAATAAAATCCAACAAAAATATATAACCAATAACAAATTTCAACA
452 TACTAAAAAAAATCCAACAAAAATATATAACC-ATAACAAATTTCAACA
7423226 AATATAAAAC
Statistics
Matches: 446, Mismatches: 46, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
513 17 0.04
514 353 0.79
515 27 0.06
516 11 0.02
517 13 0.03
518 25 0.06
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.31
Consensus pattern (515 bp):
ATTCACAGATAAATTATGAAAAAAAGAATAAAATAGAACAATTAAGTTTATTTATATCAAGTTTG
ATCAATACAATAAAATCAAAATATTTCAATAATTAGTAATATATAAGTTTCACTAAACTATCAAA
TATATAAATTACTCCAAAACAAATATAAATCTTATTCTACATCAAACCCAATTATAACCTCAAAT
CAACATAAATAATTTTAATTTCTATAATTATGATTAAAATTTAGAAAATATTAAATATAAAACAT
CCAACAAAATATATATAAATCTCAATACACATTAAACCCAAATTAACCAATATAAATCTTACACA
TCTAAAAGCTAAGAAATCTATAACAAAACCCAACAAATCTCAACAATACTTTCACAAATAAAAAA
TAAATTACTCAACAAATAAAAAAATACTCAACAATAATAAAAATAAATAAAAAAATAAAAATACT
AAAAAAAATCCAACAAAAATATATAACCATAACAAATTTCAACACACATTTATAACATGT
Found at i:7423157 original size:19 final size:20
Alignment explanation
Indices: 7423111--7423159 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
7423101 TCACAAATAA
7423111 AAAATAAATTACTCAACAAAT
1 AAAA-AAATTACTCAACAAAT
*
7423132 AAAAAAATTCCTCAAC-AAT
1 AAAAAAATTACTCAACAAAT
7423151 AATAAAAAT
1 AA-AAAAAT
7423160 AAATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 17 0.65
21 4 0.15
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAAAAATTACTCAACAAAT
Found at i:7423158 original size:23 final size:23
Alignment explanation
Indices: 7423106--7423163 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 23
7423096 TATTTTCACA
*
7423106 AATAA-AAAATAAATTACTCAAC
1 AATAATAAAAAAAATTACTCAAC
*
7423128 -A-AAT-AAAAAAATTCCTCAAC
1 AATAATAAAAAAAATTACTCAAC
7423148 AATAATAAAAATAAAT
1 AATAATAAAAA-AAAT
7423164 AAAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
20 16 0.55
21 2 0.07
22 3 0.10
23 4 0.14
24 4 0.14
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (23 bp):
AATAATAAAAAAAATTACTCAAC
Found at i:7423249 original size:26 final size:28
Alignment explanation
Indices: 7423197--7423254 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
7423187 AATCCAACAA
* * *
7423197 AAATATATAACCAATAACAAATTTCAAC
1 AAATATAAAACCAACAACAAATCTCAAC
7423225 AAATATAAAACCAACAA-AAA-CTCAAC
1 AAATATAAAACCAACAACAAATCTCAAC
7423251 AAAT
1 AAAT
7423255 TGGTAACCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
27 3 0.11
28 15 0.56
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (28 bp):
AAATATAAAACCAACAACAAATCTCAAC
Found at i:7423275 original size:56 final size:57
Alignment explanation
Indices: 7423212--7423343 Score: 164
Period size: 56 Copynumber: 2.3 Consensus size: 57
7423202 TATAACCAAT
7423212 AACAAATTTCAACAAATATAA-AACCAACAAAAACTCAACAAATTGGTAACCAATAA-A
1 AACAAATTTCAACAAATA-AATAACCAACAAAAACTCAACAAATTGGTAACCAA-AATA
* * *
7423269 AA-AAATTTTCAAC-TATAAATAACCAACAAAAACTTAATAAATTGGTAACCAAAATCTA
1 AACAAA-TTTCAACAAATAAATAACCAACAAAAACTCAACAAATTGGTAACCAAAA--TA
7423327 AACAAATTTCAACAAAT
1 AACAAATTTCAACAAAT
7423344 TTATAACAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
55 4 0.06
56 36 0.56
57 9 0.14
58 10 0.16
59 5 0.08
ACGTcount: A:0.58, C:0.17, G:0.03, T:0.22
Consensus pattern (57 bp):
AACAAATTTCAACAAATAAATAACCAACAAAAACTCAACAAATTGGTAACCAAAATA
Found at i:7424788 original size:3 final size:3
Alignment explanation
Indices: 7424780--7424816 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
7424770 TCCTTTGATC
7424780 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
7424817 TTTAAATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7431067 original size:16 final size:16
Alignment explanation
Indices: 7431046--7431076 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7431036 TCATAATATA
*
7431046 CAGGTAATTTTCATGT
1 CAGGTAATTTACATGT
7431062 CAGGTAATTTACATG
1 CAGGTAATTTACATG
7431077 CAATGGCATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (16 bp):
CAGGTAATTTACATGT
Found at i:7434487 original size:6 final size:6
Alignment explanation
Indices: 7434476--7434530 Score: 74
Period size: 6 Copynumber: 9.2 Consensus size: 6
7434466 ACCACCACCT
* * * *
7434476 CCTCCA CCTCCA CCTCCA CCACCA CCGCCG CCTCCA CCTCCA CCTCCT
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA
7434524 CCTCCA C
1 CCTCCA C
7434531 TATTTCCACC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.15, C:0.67, G:0.04, T:0.15
Consensus pattern (6 bp):
CCTCCA
Found at i:7434731 original size:12 final size:12
Alignment explanation
Indices: 7434716--7434761 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
7434706 ATTGCCATTG
*
7434716 CCACTGCCACCT
1 CCACCGCCACCT
7434728 CCACCGCCACCT
1 CCACCGCCACCT
* *
7434740 CCACCACCACCA
1 CCACCGCCACCT
*
7434752 CCGCCGCCAC
1 CCACCGCCAC
7434762 TTCCTCCTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.20, C:0.65, G:0.09, T:0.07
Consensus pattern (12 bp):
CCACCGCCACCT
Found at i:7441094 original size:12 final size:12
Alignment explanation
Indices: 7441077--7441106 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7441067 CAACTACCAC
7441077 CTTTTTTCTTTT
1 CTTTTTTCTTTT
*
7441089 CTTTTTTTTTTT
1 CTTTTTTCTTTT
7441101 CTTTTT
1 CTTTTT
7441107 ACCCTTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
CTTTTTTCTTTT
Found at i:7444272 original size:22 final size:21
Alignment explanation
Indices: 7444247--7444288 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7444237 CCTCCTCCAT
7444247 TTTTTACTTTTTATTAAATTTA
1 TTTTT-CTTTTTATTAAATTTA
* *
7444269 TTTTTCTTTTTTTTTAATTT
1 TTTTTCTTTTTATTAAATTT
7444289 TTTACTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTCTTTTTATTAAATTTA
Found at i:7444749 original size:23 final size:24
Alignment explanation
Indices: 7444722--7444771 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
7444712 TATATAAATT
*
7444722 TATTTTAT-TATTTATTTATTTTA
1 TATTTTATATATTTATTTAATTTA
7444745 TA-TTTATATATTTATTTAATTTA
1 TATTTTATATATTTATTTAATTTA
7444768 -ATTT
1 TATTT
7444772 AACATCTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TATTTTATATATTTATTTAATTTA
Found at i:7444750 original size:15 final size:16
Alignment explanation
Indices: 7444719--7444757 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
7444709 ATATATATAA
7444719 ATTTATTTTATTATTT
1 ATTTATTTTATTATTT
7444735 ATTTATTTTA-TATTT
1 ATTTATTTTATTATTT
*
7444750 ATATATTT
1 ATTTATTT
7444758 ATTTAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTATTTTATTATTT
Found at i:7445083 original size:60 final size:60
Alignment explanation
Indices: 7444983--7445105 Score: 210
Period size: 60 Copynumber: 2.0 Consensus size: 60
7444973 GCTAGTGCTG
* **
7444983 ATGAGCTGGATCAAGGAATTAAAGAATAACAATTAACAACTGGCCACCGCCTTTCTTTTA
1 ATGAACTGGATCAAGGAATTAAAGAATAACAACCAACAACTGGCCACCGCCTTTCTTTTA
*
7445043 ATGAACTGGATCAAGGAATTAAAGAATAACAACCAGCAACTGGCCACCGCCTTTCTTTTA
1 ATGAACTGGATCAAGGAATTAAAGAATAACAACCAACAACTGGCCACCGCCTTTCTTTTA
7445103 ATG
1 ATG
7445106 CAGAATTATC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (60 bp):
ATGAACTGGATCAAGGAATTAAAGAATAACAACCAACAACTGGCCACCGCCTTTCTTTTA
Found at i:7447171 original size:25 final size:24
Alignment explanation
Indices: 7447134--7447196 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
7447124 GAAAACTTTG
7447134 ACATAGATTTTTATAGGATATTTTA
1 ACAT-GATTTTTATAGGATATTTTA
* * *
7447159 ACATGATTCTTTATATGATGTTTTT
1 ACATGATT-TTTATAGGATATTTTA
*
7447184 GCATGATTTTTAT
1 ACATGATTTTTAT
7447197 GATTTATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 9 0.27
25 24 0.73
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (24 bp):
ACATGATTTTTATAGGATATTTTA
Found at i:7447205 original size:13 final size:14
Alignment explanation
Indices: 7447189--7447218 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
7447179 TTTTTGCATG
7447189 ATTTTTATGAT-TT
1 ATTTTTATGATCTT
7447202 ATTTTTATGATCTT
1 ATTTTTATGATCTT
7447216 ATT
1 ATT
7447219 ATGATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (14 bp):
ATTTTTATGATCTT
Found at i:7447206 original size:24 final size:23
Alignment explanation
Indices: 7447186--7447229 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7447176 ATGTTTTTGC
7447186 ATGAT-TT-TTATGATTTATTTTT
1 ATGATCTTATTATGA-TTATTTTT
7447208 ATGATCTTATTATGATTATTTT
1 ATGATCTTATTATGATTATTTT
7447230 ATTAAGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 9 0.45
24 6 0.30
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.64
Consensus pattern (23 bp):
ATGATCTTATTATGATTATTTTT
Found at i:7447915 original size:46 final size:46
Alignment explanation
Indices: 7447848--7447942 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
7447838 TTTTGATGGG
* *
7447848 TTTTTATATGATTATTGATGATTTTCTTTTCATGTGTACTAATCTA
1 TTTTTATATGATTATTGATGATTTTCTTTTCACGTGTACCAATCTA
*
7447894 TTTTTATGTGATTATTGATGATTTTCTTTTCACGTGTACCAATCTA
1 TTTTTATATGATTATTGATGATTTTCTTTTCACGTGTACCAATCTA
7447940 TTT
1 TTT
7447943 GTTTTGTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.22, C:0.11, G:0.12, T:0.56
Consensus pattern (46 bp):
TTTTTATATGATTATTGATGATTTTCTTTTCACGTGTACCAATCTA
Found at i:7452286 original size:22 final size:22
Alignment explanation
Indices: 7452261--7452462 Score: 127
Period size: 22 Copynumber: 9.2 Consensus size: 22
7452251 TGAAAAAATT
*
7452261 TTATCAATGATTTACAATTAAG
1 TTATCAATGATTTACTATTAAG
* * *
7452283 TTATCATTTATTTACTATTATG
1 TTATCAATGATTTACTATTAAG
** * *
7452305 TTATCAACAATTTGCTACTAAG
1 TTATCAATGATTTACTATTAAG
* * ** ** *
7452327 CTAACAATGATACACTGCTAAT
1 TTATCAATGATTTACTATTAAG
* *
7452349 TTATCAAAT-ATTTACTACTAAA
1 TTATC-AATGATTTACTATTAAG
* * * *
7452371 TTAGCATTGATTTACTACTAAT
1 TTATCAATGATTTACTATTAAG
* * *
7452393 TTATAAATAATTTACTACTAAG
1 TTATCAATGATTTACTATTAAG
* * *
7452415 TTATGACTGATTTACTATTAAA
1 TTATCAATGATTTACTATTAAG
* *
7452437 TTATTAATGATTTACCATTAAG
1 TTATCAATGATTTACTATTAAG
7452459 TTAT
1 TTAT
7452463 TGAAATTTGT
Statistics
Matches: 136, Mismatches: 42, Indels: 4
0.75 0.23 0.02
Matches are distributed among these distances:
21 2 0.01
22 131 0.96
23 3 0.02
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (22 bp):
TTATCAATGATTTACTATTAAG
Found at i:7452448 original size:66 final size:66
Alignment explanation
Indices: 7452358--7452640 Score: 155
Period size: 66 Copynumber: 4.2 Consensus size: 66
7452348 TTTATCAAAT
* * * * *
7452358 ATTTACTACTAAATTAGCATTGATTTACTACTAATTTATAAATAATTTACTACTAAGTTATGACT
1 ATTTACTATTAAATTATCAATGATTTACTACTAATTTATAAATAATTTACTACTAAATTATAACT
7452423 G
66 G
* * * * ** ** * *
7452424 ATTTACTATTAAATTATTAATGATTTACCATTAAGTTATTGA-AATTTGTTA-TAGAGTTATAAT
1 ATTTACTATTAAATTATCAATGATTTACTACTAATTTATAAATAATTTACTACTA-AATTATAAC
7452487 TG
65 TG
* * ** *
7452489 AATTTAATATT-AATTACTCAATGATTTATTACATAGTTATCAATTATTAACCAATTTACTATTA
1 -ATTTACTATTAAATTA-TCAATGATTTACTAC-TA---AT---TTA-TAAATAATTTACTACTA
*
7452553 AATTATTACTG
56 AATTATAACTG
* * * * * *
7452564 ATTTACAACTAAATTATTAGTGATTTATTACTAAGTTT-TTAATAATTTAC-ATCTAAATTATCA
1 ATTTACTATTAAATTATCAATGATTTACTACTAA-TTTATAAATAATTTACTA-CTAAATTAT-A
7452627 A-TG
63 ACTG
7452630 ATTTACTATTA
1 ATTTACTATTA
7452641 TGTTATTATA
Statistics
Matches: 161, Mismatches: 39, Indels: 34
0.69 0.17 0.15
Matches are distributed among these distances:
64 2 0.01
65 22 0.14
66 81 0.50
67 3 0.02
68 2 0.01
70 2 0.01
71 1 0.01
73 5 0.03
74 21 0.13
75 20 0.12
76 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.46
Consensus pattern (66 bp):
ATTTACTATTAAATTATCAATGATTTACTACTAATTTATAAATAATTTACTACTAAATTATAACT
G
Found at i:7452576 original size:22 final size:22
Alignment explanation
Indices: 7452542--7452635 Score: 89
Period size: 22 Copynumber: 4.3 Consensus size: 22
7452532 TTATTAACCA
* * *
7452542 ATTTACTATTAAATTATTACTG
1 ATTTACAACTAAATTATTAATG
*
7452564 ATTTACAACTAAATTATTAGTG
1 ATTTACAACTAAATTATTAATG
** * * *
7452586 ATTTATTACTAAGTTTTTAATA
1 ATTTACAACTAAATTATTAATG
* *
7452608 ATTTACATCTAAATTATCAATG
1 ATTTACAACTAAATTATTAATG
7452630 ATTTAC
1 ATTTAC
7452636 TATTATGTTA
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (22 bp):
ATTTACAACTAAATTATTAATG
Found at i:7452612 original size:44 final size:44
Alignment explanation
Indices: 7452542--7452662 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 44
7452532 TTATTAACCA
* * * * *
7452542 ATTTACTATTAAATTATTACT-GATTTACAACTAAATTATTAGTG
1 ATTTACTACTAAGTTATTA-TACATTTACAACTAAATTATCAATG
* * *
7452586 ATTTATTACTAAGTTTTTAATA-ATTTACATCTAAATTATCAATG
1 ATTTACTACTAAGTTATT-ATACATTTACAACTAAATTATCAATG
* *
7452630 ATTTACTATTATGTTATTATACATTTACAACTA
1 ATTTACTACTAAGTTATTATACATTTACAACTA
7452663 TGCTATCATT
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
43 3 0.05
44 58 0.94
45 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (44 bp):
ATTTACTACTAAGTTATTATACATTTACAACTAAATTATCAATG
Found at i:7452646 original size:118 final size:118
Alignment explanation
Indices: 7452424--7452637 Score: 265
Period size: 118 Copynumber: 1.8 Consensus size: 118
7452414 GTTATGACTG
* * * *
7452424 ATTTACTATTAAATTATTAATGATTTACCATTAAGTTATTGAAATTTGTTATAGAGTTATAATTG
1 ATTTACTATTAAATTATTAATGATTTACAACTAAATTATTGAAATTTATTATAGAGTTATAATTG
* *
7452489 AATTTAATATTAATTACTCAATGATTTATTACATAGTTATCAATTATTAACCA
66 AATTTAATATAAATTACTCAATGATTTACTACATAGTTATCAATTATTAACCA
* ** *
7452542 ATTTACTATTAAATTATTACTGATTTACAACTAAATTATTAGTGATTTATTACTA-AGTTTTTAA
1 ATTTACTATTAAATTATTAATGATTTACAACTAAATTATT-GAAATTTATTA-TAGAG-TTATAA
*
7452606 -T-AATTTACATCTAAATTA-TCAATGATTTACTA
63 TTGAATTTA-ATATAAATTACTCAATGATTTACTA
7452638 TTATGTTATT
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
118 55 0.68
119 19 0.23
120 7 0.09
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (118 bp):
ATTTACTATTAAATTATTAATGATTTACAACTAAATTATTGAAATTTATTATAGAGTTATAATTG
AATTTAATATAAATTACTCAATGATTTACTACATAGTTATCAATTATTAACCA
Found at i:7452785 original size:43 final size:44
Alignment explanation
Indices: 7452709--7452807 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 44
7452699 TATTACAAAA
* * *
7452709 TTATCATAGATTTATTATTAACTTAACTATGATTCATTATCAAT
1 TTATCATAGATTTATTATTAAATTAACCATGATTCATTATCAAG
* * *
7452753 TTATCACTA-ATTTA-TATTAAATTATCCATGATTTATTATTAAG
1 TTATCA-TAGATTTATTATTAAATTAACCATGATTCATTATCAAG
*
7452796 TTATCATTGATT
1 TTATCATAGATT
7452808 AACTACTACT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.02
43 32 0.70
44 11 0.24
45 2 0.04
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.49
Consensus pattern (44 bp):
TTATCATAGATTTATTATTAAATTAACCATGATTCATTATCAAG
Found at i:7452806 original size:22 final size:22
Alignment explanation
Indices: 7452666--7452807 Score: 87
Period size: 22 Copynumber: 6.5 Consensus size: 22
7452656 ACAACTATGC
* *
7452666 TATCATTAATTTATTACTT-AGT
1 TATCATTGATTTATTA-TTAAAT
* **
7452688 TTTCAATT-ATTTATTACAAAAT
1 TATC-ATTGATTTATTATTAAAT
* *
7452710 TATCATAGATTTATTATTAACT
1 TATCATTGATTTATTATTAAAT
* * * *
7452732 TAAC-TATGATTCATTATCAATT
1 TATCAT-TGATTTATTATTAAAT
* *
7452754 TATCACTAATTTA-TATTAAAT
1 TATCATTGATTTATTATTAAAT
*
7452775 TATCCA-TGATTTATTATTAAGT
1 TAT-CATTGATTTATTATTAAAT
7452797 TATCATTGATT
1 TATCATTGATT
7452808 AACTACTACT
Statistics
Matches: 90, Mismatches: 22, Indels: 16
0.70 0.17 0.12
Matches are distributed among these distances:
21 20 0.22
22 67 0.74
23 3 0.03
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (22 bp):
TATCATTGATTTATTATTAAAT
Found at i:7452880 original size:22 final size:22
Alignment explanation
Indices: 7452855--7452924 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
7452845 TTAAGTTTTT
*
7452855 AATGATTAACTACTAACTTATC
1 AATGATTTACTACTAACTTATC
* * *
7452877 AATGATTTACTATTAAGTTATT
1 AATGATTTACTACTAACTTATC
* * *
7452899 TATCATTTACTACTAAGTTTATC
1 AATGATTTACTACTAA-CTTATC
7452922 AAT
1 AAT
7452925 TTCATCATTA
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
22 31 0.84
23 6 0.16
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (22 bp):
AATGATTTACTACTAACTTATC
Found at i:7452893 original size:44 final size:44
Alignment explanation
Indices: 7452827--7452924 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
7452817 TAAGTTATAC
* * *
7452827 ACTTAT-ATTGATTTACTTTTAAGTT-TTTAATGATTAACTACTA
1 ACTTATCAATGATTTACTATTAAGTTATTT-ATCATTAACTACTA
*
7452870 ACTTATCAATGATTTACTATTAAGTTATTTATCATTTACTACTA
1 ACTTATCAATGATTTACTATTAAGTTATTTATCATTAACTACTA
*
7452914 AGTTTATCAAT
1 A-CTTATCAAT
7452925 TTCATCATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 6 0.13
44 30 0.64
45 11 0.23
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (44 bp):
ACTTATCAATGATTTACTATTAAGTTATTTATCATTAACTACTA
Found at i:7452962 original size:68 final size:65
Alignment explanation
Indices: 7452881--7453006 Score: 164
Period size: 68 Copynumber: 1.9 Consensus size: 65
7452871 CTTATCAATG
* * *
7452881 ATTTACTATTAAGTTATTTA-TCATTTACTACTAAGTTTATCAATTTCATCATTATTAAATTGAA
1 ATTTACTATTAAGTTA-TCACTAATTTACTACTAAG-TTATC-A-TTAATCATTATTAAATTGAA
7452945 ATTA
62 ATTA
* *
7452949 ATTTACTATTAAGTTATCACTAATTTATTACTAAGTTATCATTAATTATTATTAAATT
1 ATTTACTATTAAGTTATCACTAATTTACTACTAAGTTATCATTAATCATTATTAAATT
7453007 TTAAATCATT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
65 15 0.29
66 1 0.02
67 7 0.13
68 29 0.56
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (65 bp):
ATTTACTATTAAGTTATCACTAATTTACTACTAAGTTATCATTAATCATTATTAAATTGAAATTA
Found at i:7452972 original size:22 final size:22
Alignment explanation
Indices: 7452947--7453003 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
7452937 AAATTGAAAT
*
7452947 TAATTTACTATTAAGTTATCAC
1 TAATTTATTATTAAGTTATCAC
* *
7452969 TAATTTATTACTAAGTTATCAT
1 TAATTTATTATTAAGTTATCAC
7452991 TAA-TTATTATTAA
1 TAATTTATTATTAA
7453004 ATTTTAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 9 0.29
22 22 0.71
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.49
Consensus pattern (22 bp):
TAATTTATTATTAAGTTATCAC
Found at i:7453392 original size:22 final size:22
Alignment explanation
Indices: 7453335--7453493 Score: 65
Period size: 22 Copynumber: 7.2 Consensus size: 22
7453325 ATTAATTATC
7453335 TACTACTAAGA-TATAAATGATT
1 TACTACTAA-ATTATAAATGATT
* * *
7453357 TACAACCAAATTATCAATGATT
1 TACTACTAAATTATAAATGATT
* * * *
7453379 TACTACTAATTTATGAATAAGT
1 TACTACTAAATTATAAATGATT
* *
7453401 TA-TCCTTAAATTATGAATGATT
1 TACTAC-TAAATTATAAATGATT
* * * * ***
7453423 AACCATTAAATTGTTGGTGATT
1 TACTACTAAATTATAAATGATT
* * *
7453445 TA-TCACTAAGTTATTAATAATT
1 TACT-ACTAAATTATAAATGATT
* *
7453467 TATTA-TAAAGTTATAACTGATT
1 TACTACTAAA-TTATAAATGATT
7453489 TACTA
1 TACTA
7453494 TTAATTTACC
Statistics
Matches: 97, Mismatches: 34, Indels: 12
0.68 0.24 0.08
Matches are distributed among these distances:
21 6 0.06
22 90 0.93
23 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (22 bp):
TACTACTAAATTATAAATGATT
Found at i:7455475 original size:19 final size:18
Alignment explanation
Indices: 7455451--7455498 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 18
7455441 TCTGATTATA
7455451 AAGAGAAAGGAGAGGAAAG
1 AAGAGAAAGGAGA-GAAAG
7455470 AAGAGAAA--AGAGAAAG
1 AAGAGAAAGGAGAGAAAG
7455486 AAGA-AAAGG-GAGA
1 AAGAGAAAGGAGAGA
7455499 TCTGAAGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.11
16 13 0.48
17 3 0.11
19 8 0.30
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (18 bp):
AAGAGAAAGGAGAGAAAG
Found at i:7459251 original size:17 final size:17
Alignment explanation
Indices: 7459227--7459270 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
7459217 ATACCTTAAT
7459227 TAAAAGAAA-TAAAGAAC
1 TAAAAGAAACTAAA-AAC
*
7459244 TTAAAGAAACTTAAAAAC
1 TAAAAGAAAC-TAAAAAC
7459262 TAAAAGAAA
1 TAAAAGAAA
7459271 GAAAAGAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 8 0.35
18 11 0.48
19 4 0.17
ACGTcount: A:0.68, C:0.07, G:0.09, T:0.16
Consensus pattern (17 bp):
TAAAAGAAACTAAAAAC
Found at i:7469993 original size:30 final size:30
Alignment explanation
Indices: 7469933--7470008 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
7469923 ACAATGGATG
* ** *
7469933 AAAGATGAAAAAAAAAAGAAGAGGATGAAA
1 AAAGATGAAAAAAAAAAGAAAAAAAGGAAA
*
7469963 AAAGATGAAAAAAAAGAGAAAAAAAGGAAA
1 AAAGATGAAAAAAAAAAGAAAAAAAGGAAA
* *
7469993 AATGGATGGAAAAAAA
1 AA-AGATGAAAAAAAA
7470009 TGAAAATGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 27 0.71
31 11 0.29
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.07
Consensus pattern (30 bp):
AAAGATGAAAAAAAAAAGAAAAAAAGGAAA
Found at i:7470035 original size:29 final size:30
Alignment explanation
Indices: 7470003--7470060 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
7469993 AATGGATGGA
*
7470003 AAAAAATG-AAAATGAGAAAAAT-AAAAAAT
1 AAAAAATGAAAAAAGAG-AAAATGAAAAAAT
7470032 AAAAAATGAAAAAAGAGAAAATGAAAAAA
1 AAAAAATGAAAAAAGAGAAAATGAAAAAA
7470061 AGATGAAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (30 bp):
AAAAAATGAAAAAAGAGAAAATGAAAAAAT
Found at i:7470059 original size:15 final size:15
Alignment explanation
Indices: 7470005--7470060 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
7469995 TGGATGGAAA
*
7470005 AAAATG-AAAATGAG
1 AAAATGAAAAAAGAG
* *
7470019 AAAAAT-AAAAAATAA
1 -AAAATGAAAAAAGAG
7470034 AAAATGAAAAAAGAG
1 AAAATGAAAAAAGAG
7470049 AAAATGAAAAAA
1 AAAATGAAAAAA
7470061 AGATGAAAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
14 5 0.15
15 29 0.85
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (15 bp):
AAAATGAAAAAAGAG
Found at i:7470852 original size:79 final size:79
Alignment explanation
Indices: 7470721--7470915 Score: 212
Period size: 79 Copynumber: 2.5 Consensus size: 79
7470711 CTAGTAGATG
* * * * * * **
7470721 AAATTCATTCTTGAATGACTAGTGCTGAAAACCCTGTGAATGGTGATCAAGTGATGAATGCAATG
1 AAATTTATTCTTGAATGGCTAGTGCTGAGAAGCTTGTAAATGGTGATCAAGTGATGAACACAATG
* ** **
7470786 TGAATTAATTGATA
66 CGAACCAAAGGATA
* *
7470800 AAATTTATT-TTGAAATGGCTAGTGCTGAGAAGCTTGTAAATGGTGATTAAGTGATGAACATAAT
1 AAATTTATTCTTG-AATGGCTAGTGCTGAGAAGCTTGTAAATGGTGATCAAGTGATGAACACAAT
*
7470864 GCGGACCAAAGGATA
65 GCGAACCAAAGGATA
* *
7470879 GAATTTATTCTTGAATGGCTAGTGTTGAGAAGCTTGT
1 AAATTTATTCTTGAATGGCTAGTGCTGAGAAGCTTGT
7470916 GAATTGTATT
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
78 3 0.03
79 90 0.94
80 3 0.03
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (79 bp):
AAATTTATTCTTGAATGGCTAGTGCTGAGAAGCTTGTAAATGGTGATCAAGTGATGAACACAATG
CGAACCAAAGGATA
Found at i:7470940 original size:42 final size:42
Alignment explanation
Indices: 7470881--7470964 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
7470871 AAAGGATAGA
* *
7470881 ATTTATTCTTGAATGGCTAGTGTTGAGAAGCTTGTGAATTGT
1 ATTTATTCTTGAATGGCTAGTGCTGAGAAGCCTGTGAATTGT
*
7470923 ATTTATTTTTGAATGGCTAGTGCTGAGAAGCCTGTGAATTGT
1 ATTTATTCTTGAATGGCTAGTGCTGAGAAGCCTGTGAATTGT
7470965 GATGAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (42 bp):
ATTTATTCTTGAATGGCTAGTGCTGAGAAGCCTGTGAATTGT
Found at i:7471465 original size:21 final size:21
Alignment explanation
Indices: 7471439--7471602 Score: 108
Period size: 21 Copynumber: 7.7 Consensus size: 21
7471429 AGACATTTTC
7471439 AAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* *
7471460 AAATGAGAATCTTTAAGACATTTT
1 AAATGAGAATCTTT--GA-GTCTT
* * *
7471484 CAAATGAGAATTTTTGAATCCTC
1 -AAATGAGAATCTTTGAGT-CTT
7471507 AAATGAGAATCTTTGAGT-TT
1 AAATGAGAATCTTTGAGTCTT
*
7471527 ---T--CAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* *
7471543 AAATGAGAATCTTTAAGACATTTT
1 AAATGAGAATCTTT--GA-GTCTT
*
7471567 CAAATGAGAATCTTTAAGT-TT
1 -AAATGAGAATCTTTGAGTCTT
7471588 CAAATGAGAATCTTT
1 -AAATGAGAATCTTT
7471603 AAGTTTCATC
Statistics
Matches: 114, Mismatches: 14, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
15 11 0.10
16 2 0.02
17 1 0.01
19 1 0.01
20 1 0.01
21 38 0.33
22 19 0.17
23 8 0.07
24 6 0.05
25 27 0.24
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (21 bp):
AAATGAGAATCTTTGAGTCTT
Found at i:7471481 original size:46 final size:46
Alignment explanation
Indices: 7471414--7471701 Score: 267
Period size: 46 Copynumber: 6.4 Consensus size: 46
7471404 CTGAATTTTG
*
7471414 AAATGAGAATTTTTAAGACATTTTCAAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAGTCTT
* * *
7471460 AAATGAGAATCTTTAAGACATTTTCAAATGAGAATTTTTGAATCCTC
1 AAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAGT-CTT
*
7471507 AAATGAGAATCTTT--GA-GTTTTC-------AATCTTTGAGTCTT
1 AAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAGTCTT
*
7471543 AAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTAAGT-TT
1 AAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAGTCTT
* * ** ***
7471588 CAAATGAGAATCTTTAAGTTTCATCTTTTAGTTTTCAATCTTTGAGTCTT
1 -AAATGAGAATCTTTAAG--ACAT-TTTCAAATGAGAATCTTTGAGTCTT
* ** * *
7471638 AAATGAGAATCTTTAAGAAATCCTCAAATGAGAATTTTTAAGT-TT
1 AAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAGTCTT
*
7471683 CAAATGATAATCTTTAAGA
1 -AAATGAGAATCTTTAAGA
7471702 TGTGACACCT
Statistics
Matches: 194, Mismatches: 31, Indels: 34
0.75 0.12 0.13
Matches are distributed among these distances:
36 16 0.08
37 9 0.05
38 2 0.01
39 5 0.03
44 5 0.03
45 6 0.03
46 96 0.49
47 18 0.09
48 3 0.02
49 32 0.16
50 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.40
Consensus pattern (46 bp):
AAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAGTCTT
Found at i:7471530 original size:22 final size:22
Alignment explanation
Indices: 7471405--7471530 Score: 119
Period size: 25 Copynumber: 5.5 Consensus size: 22
7471395 GATGAAATCC
* *
7471405 TGAATTTTGAAATGAGAATTTT
1 TGAATTTTCAAATGAGAATCTT
7471427 TAAGACATTTTCAAATGAGAATCTT
1 T--GA-ATTTTCAAATGAGAATCTT
* *
7471452 TGAGTCTT-AAATGAGAATCTT
1 TGAATTTTCAAATGAGAATCTT
*
7471473 TAAGACATTTTCAAATGAGAATTTT
1 T--GA-ATTTTCAAATGAGAATCTT
**
7471498 TGAATCCTCAAATGAGAATCTT
1 TGAATTTTCAAATGAGAATCTT
*
7471520 TGAGTTTTCAA
1 TGAATTTTCAA
7471531 TCTTTGAGTC
Statistics
Matches: 84, Mismatches: 13, Indels: 14
0.76 0.12 0.13
Matches are distributed among these distances:
21 14 0.17
22 28 0.33
23 6 0.07
24 5 0.06
25 31 0.37
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (22 bp):
TGAATTTTCAAATGAGAATCTT
Found at i:7471547 original size:83 final size:81
Alignment explanation
Indices: 7471446--7471615 Score: 272
Period size: 83 Copynumber: 2.1 Consensus size: 81
7471436 TTCAAATGAG
*
7471446 AATCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATTTTTGAA-TCCTCAAA
1 AATCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTT-AAGT-CTCAAA
*
7471510 TGAGAATCTTTGAGTTTTC
64 TGAGAATCTTTAAG-TTTC
*
7471529 AATCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTAAGTTTCAAATG
1 AATCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTAAGTCTCAAATG
7471594 AGAATCTTTAAGTTTC
66 AGAATCTTTAAGTTTC
7471610 -ATCTTT
1 AATCTTT
7471616 TAGTTTTCAA
Statistics
Matches: 83, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
80 6 0.07
81 4 0.05
82 20 0.24
83 53 0.64
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (81 bp):
AATCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTAAGTCTCAAATG
AGAATCTTTAAGTTTC
Found at i:7471603 original size:21 final size:21
Alignment explanation
Indices: 7471529--7471700 Score: 103
Period size: 21 Copynumber: 7.5 Consensus size: 21
7471519 TTGAGTTTTC
*
7471529 AATCTTTGAGTCTT-AAATGAG
1 AATCTTTAAGT-TTCAAATGAG
7471550 AATCTTTAAGACATTTTCAAATGAG
1 AATCTTTAAG----TTTCAAATGAG
7471575 AATCTTTAAGTTTCAAATGAG
1 AATCTTTAAGTTTCAAATGAG
** *
7471596 AATCTTTAAGTTTCATCTTTTAG
1 AATCTTTAAGTTTCA--AATGAG
* * *
7471619 TTTTCAATCTTTGAGTCTTAAATGAG
1 -----AATCTTTAAGTTTCAAATGAG
*
7471645 AATCTTTAAGAAATCCTCAAATGAG
1 AATCTTTAAG---T-TTCAAATGAG
* *
7471670 AATTTTTAAGTTTCAAATGAT
1 AATCTTTAAGTTTCAAATGAG
7471691 AATCTTTAAG
1 AATCTTTAAG
7471701 ATGTGACACC
Statistics
Matches: 119, Mismatches: 16, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
21 61 0.51
22 1 0.01
23 3 0.03
24 3 0.03
25 36 0.30
26 3 0.03
28 12 0.10
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (21 bp):
AATCTTTAAGTTTCAAATGAG
Found at i:7471678 original size:95 final size:95
Alignment explanation
Indices: 7471515--7471700 Score: 318
Period size: 95 Copynumber: 2.0 Consensus size: 95
7471505 TCAAATGAGA
* **
7471515 ATCTTTGAGTTTTCAATCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCT
1 ATCTTTGAGTTTTCAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCCTCAAATGAGAATCT
7471580 TTAAGTTTCAAATGAGAATCTTTAAGTTTC
66 TTAAGTTTCAAATGAGAATCTTTAAGTTTC
* *
7471610 ATCTTTTAGTTTTCAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCCTCAAATGAGAATTT
1 ATCTTTGAGTTTTCAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCCTCAAATGAGAATCT
*
7471675 TTAAGTTTCAAATGATAATCTTTAAG
66 TTAAGTTTCAAATGAGAATCTTTAAG
7471701 ATGTGACACC
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 85 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (95 bp):
ATCTTTGAGTTTTCAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCCTCAAATGAGAATCT
TTAAGTTTCAAATGAGAATCTTTAAGTTTC
Found at i:7472215 original size:43 final size:42
Alignment explanation
Indices: 7472155--7472235 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
7472145 GTCGATGAGC
*
7472155 ATTTATCTTTTCAAAGTTAT-AGTGCTTCTGTTTAGAAGAACA
1 ATTTATCTTTTCAAAGTTATGA-TGCCTCTGTTTAGAAGAACA
*
7472197 ATTTAT-TTTTCTAAAAGTTGTGATGCCTCTGTTTAGAAG
1 ATTTATCTTTTC--AAAGTTATGATGCCTCTGTTTAGAAG
7472236 GAGTTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 5 0.15
42 6 0.18
43 22 0.65
44 1 0.03
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.44
Consensus pattern (42 bp):
ATTTATCTTTTCAAAGTTATGATGCCTCTGTTTAGAAGAACA
Found at i:7474068 original size:117 final size:115
Alignment explanation
Indices: 7473825--7474042 Score: 289
Period size: 117 Copynumber: 1.9 Consensus size: 115
7473815 ATTTTCTCTT
*
7473825 AAAA-AAAAAAGAATTTCTAAATAGGCCCAAATGGTAAAAAATTTAGAAATTTCAAAAAAGAAAA
1 AAAATAAAAAAGAATTTCTAAATAAGCCCAAATGGTAAAAAATTTAGAAATTTCAAAAAAGAAAA
* * *
7473889 TATTTTTAAATTAACCAAAATGGTGAAAATTTTAGAGATAAAAAAAAAAGG
66 TATTTCTAAATTAACCAAAATGATGAAAATATTAGAGATAAAAAAAAAA-G
*
7473940 AAAATAAAAAAAGAATTTCTAAATAAGCCCAAATGGTGAAAAATTTAGAAA-TTCAAAAAGAGAA
1 AAAAT-AAAAAAGAATTTCTAAATAAGCCCAAATGGTAAAAAATTTAGAAATTTCAAAAA-AG-A
* ** *
7474004 AAATATTTCTAATTTGGCCCAAATGATG-AAATAATTAGA
63 AAATATTTCTAAATTAACCAAAATGATGAAAAT-ATTAGA
7474043 TATATTTTTG
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
115 4 0.04
116 8 0.09
117 49 0.55
118 28 0.31
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.25
Consensus pattern (115 bp):
AAAATAAAAAAGAATTTCTAAATAAGCCCAAATGGTAAAAAATTTAGAAATTTCAAAAAAGAAAA
TATTTCTAAATTAACCAAAATGATGAAAATATTAGAGATAAAAAAAAAAG
Found at i:7475191 original size:144 final size:144
Alignment explanation
Indices: 7474836--7475191 Score: 421
Period size: 144 Copynumber: 2.5 Consensus size: 144
7474826 ATTTTAAAGT
* * * *
7474836 ACCAAAAATCATGAAATATTATAAAATTGAGATCTGAAAATTTTCATGAAGATCCAAGCTTGGGA
1 ACCAAAAATCATGAAATATTATGAAATTAAGATCTAAAAATTTTCATGAAAATCCAAGCTTGGGA
* * * * *
7474901 AGGTCAAATTATAAAAATACCCTTAAGGGGTATTTTTGTAATTTCACACCTTTCAGGGTATTGCT
66 AGGTCAAATTACAAAAATACCCTTAAGAGGTATTTTGGTAATTTCACACCTTTCAAGGTATTACT
*
7474966 ATGATTTCAAATAC
131 ATGATGTCAAATAC
* * * * * *
7474980 ACCAAAAATCATAAAATATTAGGAAATTAGGATCTAGAAAGTTTCATGAAAATCCAAAC-TGGAG
1 ACCAAAAATCATGAAATATTATGAAATTAAGATCTAAAAATTTTCATGAAAATCCAAGCTTGG-G
* * * *
7475044 AAGG-CTAAATTACGAAAATATCTTTAAGAGGTATTTTGGTAATTTTACACCTCTT-AAGGTATT
65 AAGGTC-AAATTACAAAAATACCCTTAAGAGGTATTTTGGTAATTTCACACCT-TTCAAGGTATT
* *
7475107 ACTGTGATGTCAAATGC
128 ACTATGATGTCAAATAC
* * ***
7475124 ACCAAAAATCATGAAATATTATGAAATTAAGATCTAAAAATTTTTATAAAAATTTGAGCTTGGGA
1 ACCAAAAATCATGAAATATTATGAAATTAAGATCTAAAAATTTTCATGAAAATCCAAGCTTGGGA
7475189 AGG
66 AGG
7475192 GCATTTTAGT
Statistics
Matches: 175, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
143 4 0.02
144 166 0.95
145 5 0.03
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (144 bp):
ACCAAAAATCATGAAATATTATGAAATTAAGATCTAAAAATTTTCATGAAAATCCAAGCTTGGGA
AGGTCAAATTACAAAAATACCCTTAAGAGGTATTTTGGTAATTTCACACCTTTCAAGGTATTACT
ATGATGTCAAATAC
Found at i:7475382 original size:19 final size:20
Alignment explanation
Indices: 7475343--7475384 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
7475333 AAGTGTTGTG
*
7475343 TAATTTTAACTTTGTTTGAC
1 TAATTTTAACTTTGATTGAC
7475363 TAATTTTAACTTT-ATTGAC
1 TAATTTTAACTTTGATTGAC
7475382 TAA
1 TAA
7475385 GTTTGATCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (20 bp):
TAATTTTAACTTTGATTGAC
Found at i:7476927 original size:12 final size:12
Alignment explanation
Indices: 7476909--7477015 Score: 65
Period size: 13 Copynumber: 8.4 Consensus size: 12
7476899 GGGTAAGCCC
7476909 ATTTTATTTTATT
1 ATTTTATTTT-TT
*
7476922 -TTTTATTTTGT
1 ATTTTATTTTTT
7476933 ATTTTTATTTTTGT
1 A-TTTTATTTTT-T
*
7476947 ATCTTATTTATTT
1 ATTTTATTT-TTT
*
7476960 A-TTTATTATTACT
1 ATTTTATT-TT-TT
*
7476973 ATTATTATTTATT
1 ATT-TTATTTTTT
* *
7476986 AATATATTATTTT
1 ATTTTATT-TTTT
7476999 ATTTTATTTTTT
1 ATTTTATTTTTT
*
7477011 CTTTT
1 ATTTT
7477016 TCTCAATTAT
Statistics
Matches: 72, Mismatches: 13, Indels: 19
0.69 0.12 0.18
Matches are distributed among these distances:
11 1 0.01
12 27 0.38
13 33 0.46
14 6 0.08
15 5 0.07
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (12 bp):
ATTTTATTTTTT
Found at i:7476963 original size:8 final size:7
Alignment explanation
Indices: 7476915--7476966 Score: 52
Period size: 7 Copynumber: 7.0 Consensus size: 7
7476905 GCCCATTTTA
7476915 TTTTATT
1 TTTTATT
7476922 TTTTATT
1 TTTTATT
*
7476929 TTGTA-T
1 TTTTATT
7476935 TTTTATT
1 TTTTATT
7476942 TTTGTATCT
1 TTT-TAT-T
7476951 TATTTATT
1 T-TTTATT
7476959 TATTTATT
1 T-TTTATT
7476967 ATTACTATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
6 5 0.13
7 15 0.38
8 12 0.31
9 5 0.13
10 2 0.05
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (7 bp):
TTTTATT
Found at i:7476982 original size:19 final size:18
Alignment explanation
Indices: 7476958--7476996 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
7476948 TCTTATTTAT
*
7476958 TTATTTATTATTACTATTA
1 TTATTTATTAATA-TATTA
7476977 TTATTTATTAATATATTA
1 TTATTTATTAATATATTA
7476995 TT
1 TT
7476997 TTATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTTATTAATATATTA
Found at i:7476984 original size:16 final size:15
Alignment explanation
Indices: 7476950--7476997 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
7476940 TTTTTGTATC
7476950 TTATTTATT--TAT-
1 TTATTTATTAATATA
*
7476962 TTA-TTATTACTATTA
1 TTATTTATTAATA-TA
7476977 TTATTTATTAATATA
1 TTATTTATTAATATA
7476992 TTATTT
1 TTATTT
7476998 TATTTTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 5 0.17
12 3 0.10
13 2 0.07
14 1 0.03
15 11 0.37
16 8 0.27
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTTATTAATATA
Found at i:7477098 original size:22 final size:22
Alignment explanation
Indices: 7477073--7477124 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
7477063 TATATATTTT
*
7477073 TATTATTATTTATCTATTCATA
1 TATTATTATTTATCTATTAATA
* *
7477095 TATTACTATTTATCTGTTAATA
1 TATTATTATTTATCTATTAATA
7477117 TATATATT
1 TAT-TATT
7477125 TGTTTTTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (22 bp):
TATTATTATTTATCTATTAATA
Found at i:7477107 original size:32 final size:32
Alignment explanation
Indices: 7477043--7477107 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
7477033 TTAACTTATT
*
7477043 TTATTATTTATCTATTAATATATATATTTTTA
1 TTATTATTTATCTATTAATATATATATATTTA
*
7477075 TTATTATTTATCTATTCATATAT-TACTATTTA
1 TTATTATTTATCTATTAATATATATA-TATTTA
7477107 T
1 T
7477108 CTGTTAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 2 0.07
32 28 0.93
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (32 bp):
TTATTATTTATCTATTAATATATATATATTTA
Found at i:7478025 original size:5 final size:5
Alignment explanation
Indices: 7478015--7478075 Score: 68
Period size: 5 Copynumber: 11.4 Consensus size: 5
7478005 TTAGTATTTC
*
7478015 TTATT TTATT TTATTT TTATT TTATT CTATT TGTATCT TTATTT TTATT
1 TTATT TTATT TTA-TT TTATT TTATT TTATT T-TAT-T TTA-TT TTATT
*
7478064 TTGTT TTATT TT
1 TTATT TTATT TT
7478076 TTTAAATAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
5 31 0.65
6 14 0.29
7 3 0.06
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:7478076 original size:6 final size:6
Alignment explanation
Indices: 7478009--7478065 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
7477999 AATTATTTAG
* * *
7478009 TATTTCT TA-TTT TA-TTT TATTTT TA-TTT TA-TTC TATTTG TATCTT
1 TATTT-T TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
7478054 TATTTT TATTTT
1 TATTTT TATTTT
7478066 GTTTTATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
5 17 0.40
6 24 0.56
7 2 0.05
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:7478076 original size:16 final size:16
Alignment explanation
Indices: 7478009--7478075 Score: 73
Period size: 16 Copynumber: 4.1 Consensus size: 16
7477999 AATTATTTAG
7478009 TATTTCTTATTTTATTT
1 TATTT-TTATTTTATTT
*
7478026 TATTTTTATTTTATTC
1 TATTTTTATTTTATTT
*
7478042 TATTTGTATCTTTATTT
1 TATTTTTAT-TTTATTT
*
7478059 T-TATTTTGTTTTATTT
1 TAT-TTTTATTTTATTT
7478075 T
1 T
7478076 TTTAAATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
16 27 0.63
17 16 0.37
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.76
Consensus pattern (16 bp):
TATTTTTATTTTATTT
Found at i:7478147 original size:30 final size:29
Alignment explanation
Indices: 7478105--7478206 Score: 73
Period size: 30 Copynumber: 3.4 Consensus size: 29
7478095 AAAAATATTT
7478105 TTGAAGAAAAGTTGAAAGTATCAATTTTTC
1 TTGAA-AAAAGTTGAAAGTATCAATTTTTC
**** ** *
7478135 TTGAAAATAAGTT-TTTCTAAAAAATATTT-
1 TTGAAAA-AAGTTGAAAGT-ATCAATTTTTC
7478164 TTGAGAAAAAGTTGAAAGTATCAATTTTTC
1 TTGA-AAAAAGTTGAAAGTATCAATTTTTC
*
7478194 TTAAAAATAAGTT
1 TTGAAAA-AAGTT
7478207 TTCTAAAAAA
Statistics
Matches: 51, Mismatches: 15, Indels: 12
0.65 0.19 0.15
Matches are distributed among these distances:
29 22 0.43
30 29 0.57
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (29 bp):
TTGAAAAAAGTTGAAAGTATCAATTTTTC
Found at i:7478157 original size:58 final size:59
Alignment explanation
Indices: 7478094--7478362 Score: 311
Period size: 59 Copynumber: 4.6 Consensus size: 59
7478084 AAATTCCAAA
7478094 AAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTTCT
1 AAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTTCT
*
7478153 AAAAAATATTTTTG-AGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAG-TTTTCT
1 AAAAAATATTTTTGAAG-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTTCT
* * *
7478211 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAATTTTTTTT
1 AAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAGTTTTTCT
* * * * * * * *
7478270 AAAAAGGTTTTTTTGAGGAGAAGTTGAAAGTATTAA-TTTTCCTCAAAATTAAAG--TTTCA
1 AAAAA-ATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAA-T-AAGTTTTTCT
*
7478329 AAAAAACA-TTTTG-AGAAAAAGTTGAAAGTATCAA
1 AAAAAATATTTTTGAAG-AAAAGTTGAAAGTATCAA
7478363 ATTTCTTTGT
Statistics
Matches: 182, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
56 1 0.01
57 26 0.14
58 49 0.27
59 72 0.40
60 32 0.18
61 2 0.01
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.38
Consensus pattern (59 bp):
AAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTTCT
Found at i:7478215 original size:117 final size:118
Alignment explanation
Indices: 7478093--7478371 Score: 370
Period size: 117 Copynumber: 2.4 Consensus size: 118
7478083 AAAATTCCAA
7478093 AAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTT-TCTTGAAAATAAGTTTTTCTAAAA
1 AAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCT-TTGAAAATAAGTTTTTCTAAAA
* *
7478157 A-ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAGTTTTC
65 AGATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAG-TTTC
* * * *
7478210 TAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTTTTTTTAAAAA
1 AAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTCTAAAAA
* * * * * *
7478275 GGTTTTTTTGAGGAGAAGTTGAAAGTATTAATTTTCCTCAAAATTAAAGTTTC
66 GATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTC
* *
7478328 AAAAAAACA-TTTTG-AGAAAAAGTTGAAAGTATCAAATTTCTTTG
1 AAAAAAATATTTTTGAAG-AAAAGTTGAAAGTATCAATTTTCTTTG
7478372 TACGAAAGCA
Statistics
Matches: 142, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
116 1 0.01
117 90 0.63
118 48 0.34
119 3 0.02
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (118 bp):
AAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTCTAAAAA
GATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTC
Found at i:7478223 original size:15 final size:16
Alignment explanation
Indices: 7478186--7478223 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7478176 TGAAAGTATC
*
7478186 AATTTTTCTTAAAAAT
1 AATTTTTCTAAAAAAT
*
7478202 AAGTTTTCTAAAAAAT
1 AATTTTTCTAAAAAAT
7478218 -ATTTTT
1 AATTTTT
7478224 GAGGAAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTTTTCTAAAAAAT
Found at i:7478449 original size:16 final size:16
Alignment explanation
Indices: 7478428--7478466 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
7478418 AGCTGAATCA
*
7478428 TTTTTTT-CTTTCTTTT
1 TTTTTTTCCTTT-TTTG
7478444 TTTTTTTCCTTTTTTG
1 TTTTTTTCCTTTTTTG
7478460 TTTTTTT
1 TTTTTTT
7478467 GAATTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTTTTCCTTTTTTG
Found at i:7478450 original size:17 final size:17
Alignment explanation
Indices: 7478428--7478466 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
7478418 AGCTGAATCA
7478428 TTTTTTT-CTTTCTTT-T
1 TTTTTTTCCTTT-TTTGT
7478444 TTTTTTTCCTTTTTTGT
1 TTTTTTTCCTTTTTTGT
7478461 TTTTTT
1 TTTTTT
7478467 GAATTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (17 bp):
TTTTTTTCCTTTTTTGT
Found at i:7482147 original size:3 final size:3
Alignment explanation
Indices: 7482139--7482166 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7482129 GTCCTTATTC
7482139 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
7482167 AAATGTTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:7488325 original size:2 final size:2
Alignment explanation
Indices: 7488318--7488344 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7488308 TAATCAATTC
7488318 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7488345 AAATAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7501659 original size:18 final size:18
Alignment explanation
Indices: 7501636--7501754 Score: 111
Period size: 18 Copynumber: 6.6 Consensus size: 18
7501626 AATTCTACTT
7501636 ATAAATAATATTATATTAAAAA
1 ATAAATAATATTATATT----A
7501658 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
* **
7501676 ATAAATAGTATGCTATTA
1 ATAAATAATATTATATTA
7501694 ATAAAT-A-A-TATATTA
1 ATAAATAATATTATATTA
* *
7501709 ATAAATACTATAATATTA
1 ATAAATAATATTATATTA
*
7501727 TTATAAT-ATATTATATTA
1 ATA-AATAATATTATATTA
7501745 ATAAATAATA
1 ATAAATAATA
7501755 AAAGAATAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
15 11 0.14
16 1 0.01
17 4 0.05
18 44 0.55
19 3 0.04
22 17 0.21
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:7501664 original size:22 final size:22
Alignment explanation
Indices: 7501636--7501682 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
7501626 AATTCTACTT
7501636 ATAAATAATATTATATTAAAAA
1 ATAAATAATATTATATTAAAAA
*
7501658 ATAAATAATATTATATTAATAA
1 ATAAATAATATTATATTAAAAA
7501680 ATA
1 ATA
7501683 GTATGCTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAAATAATATTATATTAAAAA
Found at i:7501697 original size:36 final size:35
Alignment explanation
Indices: 7501657--7501769 Score: 122
Period size: 36 Copynumber: 3.2 Consensus size: 35
7501647 TATATTAAAA
* **
7501657 AATAAATAATATTATATTAATAAATAGTATGCTATT
1 AATAAAT-ATATTATATTAATAAATACTATAATATT
7501693 AATAAATA-A-TATATTAATAAATACTATAATATT
1 AATAAATATATTATATTAATAAATACTATAATATT
* * * * *
7501726 ATTATAATATATTATATTAATAAATAATAAAAGAAT
1 AATA-AATATATTATATTAATAAATACTATAATATT
7501762 AATAAATA
1 AATAAATA
7501770 GTTTTATTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
33 24 0.37
34 5 0.08
35 6 0.09
36 30 0.46
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.39
Consensus pattern (35 bp):
AATAAATATATTATATTAATAAATACTATAATATT
Done.