Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 11 of 117
Found at i:1083758 original size:9 final size:10
Alignment explanation
Indices: 1083735--1083759 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1083725 TAGGAAAAAT
1083735 TTTTTGGAGA
1 TTTTTGGAGA
1083745 TTTTTGGAGA
1 TTTTTGGAGA
1083755 TTTTT
1 TTTTT
1083760 TTTCTGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (10 bp):
TTTTTGGAGA
Found at i:1084372 original size:22 final size:22
Alignment explanation
Indices: 1084347--1084430 Score: 61
Period size: 22 Copynumber: 3.8 Consensus size: 22
1084337 TTTAAATTCT
1084347 TTTTATCTTTATTTTATTTTTC
1 TTTTATCTTTATTTTATTTTTC
1084369 TTTT-TACTTT-TCTTTATTTATT-
1 TTTTAT-CTTTAT-TTTATTT-TTC
* *
1084391 TATTTATTTTTA-TTTATTTTCAC
1 T-TTTATCTTTATTTTATTTT-TC
*
1084414 TTTTAT-TTTGTTTTATT
1 TTTTATCTTTATTTTATT
1084431 ATTTTATTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 18
0.70 0.04 0.25
Matches are distributed among these distances:
21 6 0.12
22 34 0.68
23 9 0.18
24 1 0.02
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.76
Consensus pattern (22 bp):
TTTTATCTTTATTTTATTTTTC
Found at i:1084611 original size:60 final size:58
Alignment explanation
Indices: 1084445--1084685 Score: 279
Period size: 58 Copynumber: 4.1 Consensus size: 58
1084435 TATTTTCTTT
* * **
1084445 AAATAAAA-ATCAAAGAAAATATTTTTG-GGAAAAAGTTGAAAGTATCTGTTTTCCTTAA
1 AAATAAAATTTCAAA-AAAAAATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAA
* *
1084503 AAATAAAATTTAAAAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA
1 AAATAAAATTT-CAAAAAAAAA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
1084564 AAATCAAAGTTTCCAAAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAAT-AAAATTT-CAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
*** * *
1084624 AAATAAAATTTCAAAAAAGGGTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGA
1 AAATAAAATTTCAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1084682 AAAT
1 AAAT
1084686 CAAAGAAAAG
Statistics
Matches: 158, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
58 53 0.34
59 12 0.08
60 42 0.27
61 35 0.22
62 16 0.10
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.32
Consensus pattern (58 bp):
AAATAAAATTTCAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:1084689 original size:118 final size:120
Alignment explanation
Indices: 1084455--1084690 Score: 377
Period size: 118 Copynumber: 2.0 Consensus size: 120
1084445 AAATAAAAAT
* **
1084455 CAAAGAAAATATTTTTGGGAAAAAGTTGAAAGTATCTGTTTTCCTTAAAAATAAAATTTAAAAAA
1 CAAAGAAAACATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT--AAAA
*
1084520 AAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
64 AAAAAGGTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
* *
1084577 CAAA-AAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT-CAAAA
1 CAAAGAAAACATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTAAAAAA
*
1084640 AAGGGTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAG
66 AAAGGTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAG
1084691 AAAAGTTGAA
Statistics
Matches: 107, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
118 53 0.50
121 50 0.47
122 4 0.04
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (120 bp):
CAAAGAAAACATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTAAAAAA
AAAGGTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
Found at i:1084695 original size:37 final size:37
Alignment explanation
Indices: 1084653--1084727 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
1084643 GGTTTTTGAG
1084653 GAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAA
1 GAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAA
*
1084690 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAA
1 GAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAA
1084727 G
1 G
1084728 TTTCCAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (37 bp):
GAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAA
Found at i:1084704 original size:95 final size:97
Alignment explanation
Indices: 1084595--1084782 Score: 283
Period size: 97 Copynumber: 2.0 Consensus size: 97
1084585 CATTTTTGGG
* *
1084595 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTT-CAAAAAAGGGTTTTTGAGG-AAA
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCCAAAAAAAGATTTTTG-GGAAAA
*
1084657 AGTTAAAAGTATCAATTTTCCTTGAAAATCAAA
65 AGTTAAAAGTATCAATTTTCCTTAAAAATCAAA
* * *
1084690 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAAAATATTTTTGGGAAAAA
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCCAAAAAAAGATTTTTGGGAAAAA
*
1084755 GTTGAAAGTATCAATTTTCCTTAAAAAT
66 GTTAAAAGTATCAATTTTCCTTAAAAAT
1084783 AAATTTCCAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
95 32 0.39
96 8 0.10
97 43 0.52
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.32
Consensus pattern (97 bp):
GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCCAAAAAAAGATTTTTGGGAAAAA
GTTAAAAGTATCAATTTTCCTTAAAAATCAAA
Found at i:1084704 original size:155 final size:156
Alignment explanation
Indices: 1084535--1084841 Score: 519
Period size: 155 Copynumber: 2.0 Consensus size: 156
1084525 GGTTTTTGAG
*
1084535 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAAAACATTTTTGGGGAAAA
1 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAAAACATTTTTGGGAAAAA
* *
1084600 GTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT-C-AAAAAAGGGTTTTTGAGGAAAAGTTAA
66 GTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTCCAAAAAAAAGATTTTTGAGGAAAAGTTAA
*
1084663 AAGTATCAATTTTCCTTGAAAATCAAA
130 AAGTATCAATTTTCCTTAAAAATCAAA
*
1084690 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAAAATATTTTTGGGAAAAA
1 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAAAACATTTTTGGGAAAAA
* * *
1084755 GTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAA
66 GTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAAAGATTTTTGAGGAAAAGTTAAA
1084820 AGTATCAATTTTCCTTAAAAAT
131 AGTATCAATTTTCCTTAAAAAT
1084842 AAATTTTCAA
Statistics
Matches: 142, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
154 6 0.04
155 92 0.65
156 44 0.31
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (156 bp):
GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAAAACATTTTTGGGAAAAA
GTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAAAGATTTTTGAGGAAAAGTTAAA
AGTATCAATTTTCCTTAAAAATCAAA
Found at i:1084852 original size:214 final size:215
Alignment explanation
Indices: 1084475--1084899 Score: 617
Period size: 214 Copynumber: 2.0 Consensus size: 215
1084465 ATTTTTGGGA
**
1084475 AAAAGTTGAAAGTATCTGTTTTCCTTAAAAATAAAATTTAAAAAAAAAAAGGTTTTTGAGGAAAA
1 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTAAAAAAAAAAA-GTTTTTGAGGAAAA
*
1084540 GTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAAAACATTTTTGGGGAAAAGTTGA
65 GTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCCAAAAAAACATTTTTGGGGAAAAGTTGA
*** *
1084605 AAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAA-GGGTTTTTGAGGAAAAGTTAAAAGTAT
130 AAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAATCAATTTTTAAGG-AAAGTTAAAAGTAT
*
1084669 CAATTTTCCTTGAAAATCAAAG
194 CAATTTTCCTTAAAAATCAAAG
* * ** *
1084691 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAAAATA-TTTTTG-GGAAAA
1 AAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTAAAAAAAAAAAGTTTTTGAGG-AAA
*
1084754 AGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTCCAAAAAAAATATTTTTGGGGAAAAGTT
64 AGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCC-AAAAAAACATTTTTGGGGAAAAGTT
* *
1084817 GAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATCAATTTTTAAGGAAAGTTGAAAGTA
128 GAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAATCAATTTTTAAGGAAAGTTAAAAGTA
*
1084882 TCAGTTTTCCTTAAAAAT
193 TCAATTTTCCTTAAAAAT
1084900 AAATTTCCAA
Statistics
Matches: 188, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
213 5 0.03
214 95 0.51
215 45 0.24
216 29 0.15
217 14 0.07
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (215 bp):
AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTAAAAAAAAAAAGTTTTTGAGGAAAAG
TTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCCAAAAAAACATTTTTGGGGAAAAGTTGAA
AGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAATCAATTTTTAAGGAAAGTTAAAAGTATCA
ATTTTCCTTAAAAATCAAAG
Found at i:1084882 original size:58 final size:57
Alignment explanation
Indices: 1084690--1084948 Score: 380
Period size: 59 Copynumber: 4.4 Consensus size: 57
1084680 GAAAATCAAA
*
1084690 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAAAATATTTTTGG
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTCCAAAAAAATATTTTTGG
1084749 GAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAAATATTTTTGGG
1 G-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC-AAAAAAATATTTTT-GG
* *
1084809 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAAATCAATTTTTAAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAAT--ATTTTT-GG
*
1084868 G-AAAGTTGAAAGTATCAGTTTTCCTTAAAAATAAATTTCC-AAAAAATATTTTTTGG
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAATA-TTTTTGG
1084924 GAAAAGTTGAAAGTATCAATTTTCC
1 GAAAAGTTGAAAGTATCAATTTTCC
1084949 CTACACAAGA
Statistics
Matches: 185, Mismatches: 8, Indels: 16
0.89 0.04 0.08
Matches are distributed among these distances:
56 3 0.02
57 34 0.18
58 49 0.26
59 65 0.35
60 34 0.18
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (57 bp):
GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAATATTTTTGG
Found at i:1084899 original size:117 final size:116
Alignment explanation
Indices: 1084690--1084948 Score: 391
Period size: 117 Copynumber: 2.2 Consensus size: 116
1084680 GAAAATCAAA
* *
1084690 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAAAATATTTTTGGGAAAAA
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCCAAAAAAATATTTTTAGG-AAAA
1084755 GTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAAATATTTTTGGG
65 GTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC--AAAAAATATTTTTGGG
*
1084809 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC-AAAAAATCAATTTTTAAGG-A
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCCAAAAAAAT--ATTTTT-AGGAA
* *
1084870 AAGTTGAAAGTATCAGTTTTCCTTAAAAATAAATTTCCAAAAAATATTTTTTGG
63 AAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAATATTTTTGGG
1084924 GAAAAGTTGAAAGTATCAATTTTCC
1 GAAAAGTTGAAAGTATCAATTTTCC
1084949 CTACACAAGA
Statistics
Matches: 132, Mismatches: 5, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
115 40 0.30
116 7 0.05
117 42 0.32
118 9 0.07
119 34 0.26
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (116 bp):
GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCCAAAAAAATATTTTTAGGAAAAG
TTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAATATTTTTGGG
Found at i:1092428 original size:21 final size:21
Alignment explanation
Indices: 1092404--1092447 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1092394 TGAATTTCTG
1092404 TTGGCCAAATTGATACTTTTA
1 TTGGCCAAATTGATACTTTTA
1092425 TTGGCCAAATTGATACTTTTA
1 TTGGCCAAATTGATACTTTTA
1092446 TT
1 TT
1092448 TTTCTATTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (21 bp):
TTGGCCAAATTGATACTTTTA
Found at i:1092640 original size:12 final size:12
Alignment explanation
Indices: 1092624--1092653 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1092614 TTATCACTTA
1092624 ATTTATCTTTTT
1 ATTTATCTTTTT
*
1092636 TTTTATCTTTTT
1 ATTTATCTTTTT
1092648 ATTTAT
1 ATTTAT
1092654 TTCCAGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (12 bp):
ATTTATCTTTTT
Found at i:1094710 original size:6 final size:6
Alignment explanation
Indices: 1094699--1094725 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1094689 TGATCTTTTA
1094699 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1094726 TCCAATGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:1097399 original size:15 final size:15
Alignment explanation
Indices: 1097351--1097400 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
1097341 GTGATAAAAT
1097351 TACAACACATGATTA
1 TACAACACATGATTA
1097366 TACACTTACACATATGATTA
1 TACA---ACAC--ATGATTA
1097386 TACAACACATGATTA
1 TACAACACATGATTA
1097401 GGCATAGGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
15 11 0.37
17 4 0.13
18 4 0.13
20 11 0.37
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (15 bp):
TACAACACATGATTA
Found at i:1099471 original size:62 final size:63
Alignment explanation
Indices: 1099375--1099495 Score: 154
Period size: 62 Copynumber: 1.9 Consensus size: 63
1099365 TAATGTAAAA
* * * * * * *
1099375 AAAAAATTGTTGAATTTTTTTTAGCTACAAATTTTTTTGTTAGTAAAACTATTAGTAATGTAT
1 AAAAAATTGTTAAATTTGTATTAGCAACAAATTTTTTCGTCAGTAAAACTATCAGTAATGTAT
* *
1099438 AAAAAATT-TTAAATTTGTATTAGCAACAGATTTTTTCGTCAGTAAAACTGTCAGTAAT
1 AAAAAATTGTTAAATTTGTATTAGCAACAAATTTTTTCGTCAGTAAAACTATCAGTAAT
1099496 TATTAGCAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
62 41 0.84
63 8 0.16
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (63 bp):
AAAAAATTGTTAAATTTGTATTAGCAACAAATTTTTTCGTCAGTAAAACTATCAGTAATGTAT
Found at i:1101118 original size:29 final size:29
Alignment explanation
Indices: 1101076--1101133 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
1101066 AAGATCATCG
*
1101076 ATGTTCTATAACATTTTCTATAGCAAAAC
1 ATGTTCTATAACATTTTCTATACCAAAAC
1101105 ATGTTCTATAACATTTTCTATACCAAAAC
1 ATGTTCTATAACATTTTCTATACCAAAAC
1101134 TTTATAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (29 bp):
ATGTTCTATAACATTTTCTATACCAAAAC
Found at i:1101295 original size:24 final size:24
Alignment explanation
Indices: 1101264--1101324 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
1101254 AACATAATTG
1101264 TCTATTTTGAATAAACAAAAACTA
1 TCTATTTTGAATAAACAAAAACTA
* **** *
1101288 TCTATTTTTAATGGTTAAAAACTG
1 TCTATTTTGAATAAACAAAAACTA
1101312 TCTATTTTGAATA
1 TCTATTTTGAATA
1101325 GATTTATCTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (24 bp):
TCTATTTTGAATAAACAAAAACTA
Found at i:1103101 original size:179 final size:176
Alignment explanation
Indices: 1102774--1103102 Score: 454
Period size: 179 Copynumber: 1.9 Consensus size: 176
1102764 AATTATTTTT
* * * *
1102774 TTATTGAAATTTCATTTAAATTCTTCCACAATTTGGGACAAATTTAAACAAATTTCTCACCTAAA
1 TTATTGAAATTTCATCTAAATTATTCCACAATTTAGGACAAATTTAAAAAAATTTCTCACCTAAA
*
1102839 GATTTCTTAGAAATTTACCATTTGAAATTTCTAAGAATCTCATAATTGGATAATTATCAAAATTT
66 AATTTCTTAGAAATTTACCATTTGAAATTTCTAAGAATCTCATAATTGGATAATTAT-AAAATTT
*
1102904 TCATACAAAATTTTATTTTTTTGTTTGAAAATAAATATTAATTATTG
130 TCATAAAAAATTTTATTTTTTTGTTTGAAAATAAATATTAATTATTG
*
1102951 TTATTGAAACTTT-ATCTAAATTATTCCACCATTTAGGACAAATTTAGACAAAAATTTCTCACCT
1 TTATTGAAA-TTTCATCTAAATTATTCCACAATTTAGGACAAATTTA-A-AAAAATTTCTCACCT
* *
1103015 AAAAATTT-TATAGAAATTTACCATTTGAAATTTCTATA-AAT-TCTATCATTGGATAATTAT-T
63 AAAAATTTCT-TAGAAATTTACCATTTGAAATTTCTA-AGAATCTC-ATAATTGGATAATTATAA
*
1103076 ATTTTTC-TAAAAAATTTTATTATTTTT
125 AATTTTCATAAAAAATTTTATT-TTTTT
1103103 ATTTTTATTA
Statistics
Matches: 135, Mismatches: 10, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
176 13 0.10
177 49 0.36
178 7 0.05
179 65 0.48
180 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (176 bp):
TTATTGAAATTTCATCTAAATTATTCCACAATTTAGGACAAATTTAAAAAAATTTCTCACCTAAA
AATTTCTTAGAAATTTACCATTTGAAATTTCTAAGAATCTCATAATTGGATAATTATAAAATTTT
CATAAAAAATTTTATTTTTTTGTTTGAAAATAAATATTAATTATTG
Found at i:1103110 original size:15 final size:15
Alignment explanation
Indices: 1103090--1103122 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1103080 TTCTAAAAAA
*
1103090 TTTTATTATTTTTAT
1 TTTTATTATTTTAAT
1103105 TTTTATTATTTTAAT
1 TTTTATTATTTTAAT
1103120 TTT
1 TTT
1103123 CTCCTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATTATTTTAAT
Found at i:1105456 original size:4 final size:4
Alignment explanation
Indices: 1105447--1105472 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1105437 TGTTGTAGTA
1105447 TAAT TAAT TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TA
1105473 TAATTTAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:1105852 original size:23 final size:25
Alignment explanation
Indices: 1105826--1105875 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
1105816 AAAATTTTAG
1105826 TTTGGGAA-AA-AATGTTTTGTATT
1 TTTGGGAATAATAATGTTTTGTATT
** *
1105849 TTTGTTAATAATTATGTTTTGTATT
1 TTTGGGAATAATAATGTTTTGTATT
1105874 TT
1 TT
1105876 ATTGGCTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 6 0.27
24 2 0.09
25 14 0.64
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (25 bp):
TTTGGGAATAATAATGTTTTGTATT
Found at i:1113198 original size:25 final size:27
Alignment explanation
Indices: 1113140--1113198 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
1113130 TTATATTATT
1113140 TTATTT-ATTGAATAATTTTGAATAAA
1 TTATTTAATTGAATAATTTTGAATAAA
*
1113166 TTATTTAATTTAAT-ATTTTGAAT-AA
1 TTATTTAATTGAATAATTTTGAATAAA
1113191 TTATTTAA
1 TTATTTAA
1113199 CTTCAAAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
25 10 0.32
26 15 0.48
27 6 0.19
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (27 bp):
TTATTTAATTGAATAATTTTGAATAAA
Found at i:1118165 original size:60 final size:62
Alignment explanation
Indices: 1118062--1118176 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 62
1118052 ATAATTAACA
* * *** **
1118062 AAATATATATTCCTTTGAACTATCCAAATCGTGGCTTTTTTCTTA-TAT-ATTCCTTTGAAC
1 AAATATACATTACTTTGAACTATCCAAATCACAGCTTCCTTCTTAGTATCATTCCTTTGAAC
*
1118122 AAATATACATTACTTTGAGCTATCCAAATCACAGCTTCCTTCTTAGTATCATTCC
1 AAATATACATTACTTTGAACTATCCAAATCACAGCTTCCTTCTTAGTATCATTCC
1118177 AAGTCTTGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
60 37 0.82
61 3 0.07
62 5 0.11
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (62 bp):
AAATATACATTACTTTGAACTATCCAAATCACAGCTTCCTTCTTAGTATCATTCCTTTGAAC
Found at i:1120877 original size:20 final size:21
Alignment explanation
Indices: 1120848--1120892 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
1120838 ATAGAGCTGA
1120848 CCCACACTGCCTCTTC-TTTC
1 CCCACACTGCCTCTTCTTTTC
*
1120868 CCCACGCTGCCTCTTCTTTTC
1 CCCACACTGCCTCTTCTTTTC
1120889 CCCA
1 CCCA
1120893 TTGAAATCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.09, C:0.51, G:0.07, T:0.33
Consensus pattern (21 bp):
CCCACACTGCCTCTTCTTTTC
Found at i:1122940 original size:9 final size:9
Alignment explanation
Indices: 1122926--1122951 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1122916 TCTGAAGAAA
1122926 GTATGTCTG
1 GTATGTCTG
1122935 GTATGTCTG
1 GTATGTCTG
1122944 GTATGTCT
1 GTATGTCT
1122952 ATGCCTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.31, T:0.46
Consensus pattern (9 bp):
GTATGTCTG
Found at i:1135927 original size:144 final size:143
Alignment explanation
Indices: 1135687--1135958 Score: 402
Period size: 144 Copynumber: 1.9 Consensus size: 143
1135677 CTGTTCTGAG
*
1135687 ATAAAAGAAGTTCTGTAGATATACAAGCATACCTACCTCTTGAGGTATTGACCCGGAAAGCTTAT
1 ATAAAAGAAGTTCTGTAGAGATACAAGCATACCTACCTCTTGAGGTATTGACCCGGAAAGCTTAT
* * * * *
1135752 TCTCCAGAAGGTGAAGACTAGACAATTTGGTTAAGTTTCCTATGGAAGCGGGGATTGA-ACCAGA
66 TCTCAAAAAGGTAAAAACTAGACAATTTGGTTAAGTTTCCTATGGAAGCAGGGA-TGACACCAGA
1135816 GAAATTGTTATCAT
130 GAAATTGTTATCAT
* * * *
1135830 ATAAAATAAGTTCTGTAAGAGATACAAGCATCCCTATCTCTTGATGTATTGACCCGGAAAGCTTA
1 ATAAAAGAAGTTCTGT-AGAGATACAAGCATACCTACCTCTTGAGGTATTGACCCGGAAAGCTTA
* * *
1135895 TTTTCAAAAAGGTAAAAAGTAGACAATTTGGTTAAGTTTCTTATGGAAGCAGGGATGACACCAG
65 TTCTCAAAAAGGTAAAAACTAGACAATTTGGTTAAGTTTCCTATGGAAGCAGGGATGACACCAG
1135959 TGAGATTATT
Statistics
Matches: 114, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
143 18 0.16
144 96 0.84
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (143 bp):
ATAAAAGAAGTTCTGTAGAGATACAAGCATACCTACCTCTTGAGGTATTGACCCGGAAAGCTTAT
TCTCAAAAAGGTAAAAACTAGACAATTTGGTTAAGTTTCCTATGGAAGCAGGGATGACACCAGAG
AAATTGTTATCAT
Found at i:1138868 original size:20 final size:22
Alignment explanation
Indices: 1138850--1138923 Score: 71
Period size: 26 Copynumber: 3.3 Consensus size: 22
1138840 ATTTTAAATA
1138850 AATTTTAATTATTTAAAATTAAAAT
1 AATTTTAATTATTTAAAATT---AT
1138875 ATATTTTAATTATTTAAAATTAT
1 A-ATTTTAATTATTTAAAATTAT
* *
1138898 TATTTT-ATT-TTTAAAATAAT
1 AATTTTAATTATTTAAAATTAT
*
1138918 TATTTT
1 AATTTT
1138924 TTATTGTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
20 16 0.35
21 3 0.07
22 5 0.11
23 2 0.04
25 1 0.02
26 19 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTTTAATTATTTAAAATTAT
Found at i:1138875 original size:26 final size:26
Alignment explanation
Indices: 1138845--1138896 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
1138835 AATATATTTT
1138845 AAATAAATTTTAATTATTTAAAATTA
1 AAATAAATTTTAATTATTTAAAATTA
*
1138871 AAATATATTTTAATTATTTAAAATTA
1 AAATAAATTTTAATTATTTAAAATTA
1138897 TTATTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
AAATAAATTTTAATTATTTAAAATTA
Found at i:1138886 original size:16 final size:17
Alignment explanation
Indices: 1138815--1138880 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
1138805 TTCAAAATTT
1138815 TTAAAAT-TATTTAAAA
1 TTAAAATATATTTAAAA
*
1138831 TTAAAATATATTTTAAA
1 TTAAAATATATTTAAAA
*
1138848 -TAAATTTTAATTATTTAAAA
1 TTAAA--AT-A-TATTTAAAA
1138868 TTAAAATATATTT
1 TTAAAATATATTT
1138881 TAATTATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
16 11 0.28
17 13 0.32
18 2 0.05
19 2 0.05
20 8 0.20
21 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAAATATATTTAAAA
Found at i:1139048 original size:19 final size:19
Alignment explanation
Indices: 1139026--1139062 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1139016 TTTATATATA
*
1139026 ATAGTTTAGTATGAAAAAT
1 ATAGTTTAATATGAAAAAT
*
1139045 ATAGTTTAATATTAAAAA
1 ATAGTTTAATATGAAAAA
1139063 AAGTTACGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (19 bp):
ATAGTTTAATATGAAAAAT
Found at i:1139664 original size:28 final size:31
Alignment explanation
Indices: 1139602--1139665 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 31
1139592 AATGAGATAA
1139602 ATTATAAATAATTAAAAGTTATTTATTAATTT
1 ATTATAAATAATTAAAAGTTATTTATTAA-TT
*
1139634 ATTATATAATAA-TAAAATTTATTT-TTATATT
1 ATTATA-AATAATTAAAAGTTATTTATTA-ATT
1139665 A
1 A
1139666 AATTTACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 6 0.21
32 18 0.62
33 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (31 bp):
ATTATAAATAATTAAAAGTTATTTATTAATT
Found at i:1141194 original size:207 final size:202
Alignment explanation
Indices: 1140784--1141188 Score: 509
Period size: 207 Copynumber: 2.0 Consensus size: 202
1140774 TTAATTGTTT
** * * *
1140784 TATTAATTTTTTTTTATTTTTAATTTTAAAGAAAAAAATTTATTGTGTTGAAGTTTTTCTATAAA
1 TATTAATTAATTTCTATTTTTAATTTTAAAGAAAAAAATTTATTGTATTGAAATTTTTCTATAAA
* * * * * *
1140849 TATTCCAATACACTGGTAATATTTAAGAAAAATCTTCTCACCTAGGGATTTCGTAAAGCATCACT
66 TACTCCAATACACTGGTAATATTAAAAAAAAATCTTCTCACCAAGAGATTTCATAAAGCATCACT
* * *
1140914 ACTCAGAATACTTTTAGAATCCATCATTGGATAAAATTTCTTTTTTCCTTATTTATATTATTATT
131 ACTCAGAATACCTCTAGAATCCATCATCGGATAAAATTTC-TTTTTCCTTATTTATATTATTATT
1140979 TTTTAATA
195 TTTTAATA
1140987 TATTAATTAATTTCTATTTATT-ATTTTATAAGAAAAAAAATTTTTATTGTATTGAAAATTTTT-
1 TATTAATTAATTTCTATTT-TTAATTTTA-AAG-AAAAAAA--TTTATTGTATTG-AAATTTTTC
* * *
1141050 TATAAATACTCCAATACACTGGTAGTATTAAAAAAAAATCTTCTCACCAAGAGATTTCAT-ATGT
60 TATAAATACTCCAATACACTGGTAATATTAAAAAAAAATCTTCTCACCAAGAGATTTCATAAAGC
* *
1141114 ATCACTACTCGGAATACCTCT-GAATCTCATCATCGGATAAAAATTTC-TTTTCTTTATTT-T-T
125 ATCACTACTCAGAATACCTCTAGAATC-CATCATCGGAT-AAAATTTCTTTTTCCTTATTTATAT
1141175 TATTATTTTTTAAT
188 TATTATTTTTTAAT
1141189 TAATATTATA
Statistics
Matches: 175, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
203 37 0.21
204 6 0.03
205 23 0.13
206 30 0.17
207 72 0.41
208 7 0.04
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (202 bp):
TATTAATTAATTTCTATTTTTAATTTTAAAGAAAAAAATTTATTGTATTGAAATTTTTCTATAAA
TACTCCAATACACTGGTAATATTAAAAAAAAATCTTCTCACCAAGAGATTTCATAAAGCATCACT
ACTCAGAATACCTCTAGAATCCATCATCGGATAAAATTTCTTTTTCCTTATTTATATTATTATTT
TTTAATA
Found at i:1141970 original size:21 final size:21
Alignment explanation
Indices: 1141924--1141974 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1141914 TTTTTTGTTT
*
1141924 TTTTTGTTTCAACAAAAATGTT
1 TTTTT-TTTCAACAAAAATGTC
*
1141946 TTTTTTTTCAACAGAAA-GCTC
1 TTTTTTTTCAACAAAAATG-TC
1141967 TTTTTTTT
1 TTTTTTTT
1141975 ATAAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 1 0.04
21 20 0.77
22 5 0.19
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.55
Consensus pattern (21 bp):
TTTTTTTTCAACAAAAATGTC
Found at i:1142536 original size:52 final size:55
Alignment explanation
Indices: 1142476--1142578 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
1142466 GAGGTTTAGC
* * *
1142476 AACTTT-AAAAT-T-ATTTTGAAAAAGCTCCTCTCAGCAGAGGCTTAACAATTTT
1 AACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAAGCTCAACAATTTT
* * *
1142528 AACTTTAAAAATCTCATCTTGGAGAAGCTCCTCTCAGTAGAAGCTCAACAA
1 AACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAAGCTCAACAA
1142579 CTTGAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
52 6 0.14
53 5 0.12
54 1 0.02
55 30 0.71
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (55 bp):
AACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAAGCTCAACAATTTT
Found at i:1142674 original size:48 final size:49
Alignment explanation
Indices: 1142495--1142700 Score: 225
Period size: 48 Copynumber: 4.1 Consensus size: 49
1142485 ATTATTTTGA
*
1142495 AAAAGCTCCTCTCAGCAGAGGCTTAACAATTTTAACTTTAAAAATCTCATCTTGG
1 AAAAGCTCCTCTCAGTAGAGGC-T--CAA---TAACTTTAAAAATCTCATCTTGG
* * * * *
1142550 AGAAGCTCCTCTCAGTAGAAGCTCAACAACTTGAAAAATTCTCATATTGG
1 AAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAAA-TCTCATCTTGG
* * * * * *
1142600 AAAAGCTCCTCTTAATGGAGGTTCAATAACTTTTAAAATCT-ATCTTAG
1 AAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAAATCTCATCTTGG
*
1142648 AAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAAATCTCATCTTGA
1 AAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAAATCTCATCTTGG
1142697 AAAA
1 AAAA
1142701 TTAAATTTCA
Statistics
Matches: 125, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
48 41 0.33
49 22 0.18
50 39 0.31
52 3 0.02
54 1 0.01
55 19 0.15
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (49 bp):
AAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAAATCTCATCTTGG
Found at i:1142711 original size:20 final size:21
Alignment explanation
Indices: 1142683--1142730 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
1142673 ATAACTTTAA
* * *
1142683 AAATCTCATCTTGAAA-AATT
1 AAATTTCATCTTCAAACAATC
1142703 AAATTTCATCTTCAAACAATC
1 AAATTTCATCTTCAAACAATC
1142724 AAATTTC
1 AAATTTC
1142731 TCCTTTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTTCATCTTCAAACAATC
Found at i:1153967 original size:12 final size:13
Alignment explanation
Indices: 1153940--1153971 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1153930 TTTTTAGAAA
1153940 TTTTATTAATTGT
1 TTTTATTAATTGT
1153953 TTTTATTAATT-T
1 TTTTATTAATTGT
1153965 TTTTATT
1 TTTTATT
1153972 TTTAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (13 bp):
TTTTATTAATTGT
Found at i:1154171 original size:19 final size:18
Alignment explanation
Indices: 1154143--1154187 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
1154133 TTTCTTTATT
*
1154143 TATATTATTATTTTTTAA
1 TATATTATTAATTTTTAA
1154161 TATATTAATTAATTTTT-A
1 TATATT-ATTAATTTTTAA
*
1154179 TTTATTATT
1 TATATTATT
1154188 TTATAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
19 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATATTATTAATTTTTAA
Found at i:1154545 original size:19 final size:19
Alignment explanation
Indices: 1154521--1154564 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
1154511 CGGACCGGCT
1154521 GTTCGGTCTGGCATCAGCG
1 GTTCGGTCTGGCATCAGCG
**
1154540 GTTCGGTCTGGTGTCAGCG
1 GTTCGGTCTGGCATCAGCG
1154559 GTTCGG
1 GTTCGG
1154565 GGCGGTCTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.07, C:0.23, G:0.41, T:0.30
Consensus pattern (19 bp):
GTTCGGTCTGGCATCAGCG
Found at i:1155438 original size:26 final size:26
Alignment explanation
Indices: 1155388--1155445 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
1155378 TGTCAAGCAG
*
1155388 AATAAAGAAAGAAGAAAGAAGAAAAA
1 AATAAAGAAAAAAGAAAGAAGAAAAA
1155414 AATAAAGAAGAAAAG-AA-AAGAAAAA
1 AATAAAGAA-AAAAGAAAGAAGAAAAA
1155439 ATATAAA
1 A-ATAAA
1155446 TAAATATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 9 0.31
26 16 0.55
27 4 0.14
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.07
Consensus pattern (26 bp):
AATAAAGAAAAAAGAAAGAAGAAAAA
Found at i:1160494 original size:35 final size:33
Alignment explanation
Indices: 1160438--1160506 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 33
1160428 AGAAGATTAT
*
1160438 AAAATAACATTGAAAAGAAATTGCAAATGTTTAA
1 AAAATAACATTGAAAAGAAATT-CAAAGGTTTAA
*
1160472 AAAATTACA-TGAAAATTGAAATTCAAAGGTTTAA
1 AAAATAACATTGAAAA--GAAATTCAAAGGTTTAA
1160506 A
1 A
1160507 TAAGATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 6 0.19
34 19 0.61
35 6 0.19
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.28
Consensus pattern (33 bp):
AAAATAACATTGAAAAGAAATTCAAAGGTTTAA
Found at i:1162734 original size:72 final size:72
Alignment explanation
Indices: 1162623--1162785 Score: 265
Period size: 72 Copynumber: 2.3 Consensus size: 72
1162613 GTTTCCAACT
* *
1162623 GAAGCAGGGATTGAACCAGAGAACATATTTTCACCAAGGTAGAGAGCAGATAAGCTGGTCAAGTT
1 GAAGCAGGGATTGAACCAGAAAACATATTTTCACAAAGGTAGAGAGCAGATAAGCTGGTCAAGTT
1162688 TCCTATG
66 TCCTATG
* * *
1162695 GAAGCAGGGATTGAACCAGAAAACATATTTTTATAAAGGTAGAGAGTAGATAAGCTGGTCAAGTT
1 GAAGCAGGGATTGAACCAGAAAACATATTTTCACAAAGGTAGAGAGCAGATAAGCTGGTCAAGTT
1162760 TCCTATG
66 TCCTATG
1162767 GAAGCAGGGA-TGACACCAG
1 GAAGCAGGGATTGA-ACCAG
1162786 TGAGATTATT
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
71 3 0.04
72 82 0.96
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (72 bp):
GAAGCAGGGATTGAACCAGAAAACATATTTTCACAAAGGTAGAGAGCAGATAAGCTGGTCAAGTT
TCCTATG
Found at i:1164907 original size:22 final size:25
Alignment explanation
Indices: 1164882--1164928 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
1164872 TTAATTTTAT
1164882 TTAA-TATATAAA-ATATAA-AAAA
1 TTAATTATATAAAGATATAATAAAA
*
1164904 TTAATTATTTAAAGATATAATAAAA
1 TTAATTATATAAAGATATAATAAAA
1164929 AATAATAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 7 0.33
24 6 0.29
25 4 0.19
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (25 bp):
TTAATTATATAAAGATATAATAAAA
Found at i:1165613 original size:22 final size:23
Alignment explanation
Indices: 1165587--1165633 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
1165577 TAGCATGGAT
*
1165587 TTTTTTTTTTGG-GTAATAATAA
1 TTTTTTTTTAGGAGTAATAATAA
*
1165609 -TTTTTTTTAGGAGTGATAATAA
1 TTTTTTTTTAGGAGTAATAATAA
1165631 TTT
1 TTT
1165634 AAATTGGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
21 10 0.48
22 9 0.43
23 2 0.10
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (23 bp):
TTTTTTTTTAGGAGTAATAATAA
Found at i:1165829 original size:25 final size:26
Alignment explanation
Indices: 1165780--1165830 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
1165770 TTGGTTTTTA
* * *
1165780 ATTTTAAATTTAATTTTTTATATATT
1 ATTTTAAATCTAATTTTTAACATATT
1165806 ATTTT-AATCTAATTTTTAACATATT
1 ATTTTAAATCTAATTTTTAACATATT
1165831 TAAAGAGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTAAATCTAATTTTTAACATATT
Found at i:1165907 original size:20 final size:20
Alignment explanation
Indices: 1165865--1165909 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1165855 ATTTTTATTT
*
1165865 TATAAAAATTTAAAAATAGA
1 TATAAAAATTTAAAAACAGA
*
1165885 TATAAAAA-TTAATAAACATA
1 TATAAAAATTTAA-AAACAGA
1165905 TATAA
1 TATAA
1165910 TTGATTCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
TATAAAAATTTAAAAACAGA
Found at i:1165976 original size:13 final size:13
Alignment explanation
Indices: 1165941--1165976 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1165931 CTTAAATTTG
1165941 ATCTAAATTTAAT
1 ATCTAAATTTAAT
* *
1165954 ATATATATTTAAT
1 ATCTAAATTTAAT
1165967 ATCTAAATTT
1 ATCTAAATTT
1165977 GATCTAAATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (13 bp):
ATCTAAATTTAAT
Found at i:1166307 original size:26 final size:26
Alignment explanation
Indices: 1166257--1166314 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
1166247 TTAAAAATAG
* *
1166257 AAAAAAAAGTTATTGTTAGTATGATT
1 AAAAAAAAGTTATTATAAGTATGATT
* *
1166283 AAAAAAAAGTTATTATAATTGTGATT
1 AAAAAAAAGTTATTATAAGTATGATT
*
1166309 GAAAAA
1 AAAAAA
1166315 TTTTAATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (26 bp):
AAAAAAAAGTTATTATAAGTATGATT
Found at i:1166874 original size:12 final size:12
Alignment explanation
Indices: 1166859--1166931 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
1166849 AAGTGTTATT
*
1166859 TTTTAAAAATAA
1 TTTTAAAATTAA
1166871 TTTTATAAATTAA
1 TTTTA-AAATTAA
1166884 --TT-AAATTAAA
1 TTTTAAAATT-AA
*
1166894 TTTT-GAATTAA
1 TTTTAAAATTAA
* *
1166905 TATTAAAAATAA
1 TTTTAAAATTAA
1166917 TTTTATAAATTAA
1 TTTTA-AAATTAA
1166930 TT
1 TT
1166932 AAATTAAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
9 5 0.10
10 2 0.04
11 7 0.15
12 20 0.42
13 14 0.29
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (12 bp):
TTTTAAAATTAA
Found at i:1166895 original size:23 final size:23
Alignment explanation
Indices: 1166869--1166941 Score: 82
Period size: 23 Copynumber: 3.2 Consensus size: 23
1166859 TTTTAAAAAT
1166869 AATTTTATAAATTAATTAAATTA
1 AATTTTATAAATTAATTAAATTA
1166892 AATTTTGAATTAATATTAA--AAA-T-
1 AATTTT--A-TAA-ATTAATTAAATTA
1166915 AATTTTATAAATTAATTAAATTA
1 AATTTTATAAATTAATTAAATTA
1166938 AATT
1 AATT
1166942 CATTGCTTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
19 5 0.12
20 3 0.07
21 4 0.10
22 1 0.02
23 16 0.38
24 1 0.02
25 4 0.10
26 3 0.07
27 5 0.12
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (23 bp):
AATTTTATAAATTAATTAAATTA
Found at i:1167654 original size:6 final size:6
Alignment explanation
Indices: 1167635--1167720 Score: 72
Period size: 6 Copynumber: 14.5 Consensus size: 6
1167625 AATAAGTAAG
1167635 TTTA-T TTT-TT TTTATT TTTATAT TTTATAT TTT-TAT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTAT-T TTTAT-T TTTAT-T TTTATT TTTATT
* * * * *
1167683 ATTGTT TTTATA TATATA TTT-TT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
1167721 TGTATTTATT
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
5 11 0.16
6 45 0.66
7 12 0.18
ACGTcount: A:0.20, C:0.00, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:1167662 original size:13 final size:13
Alignment explanation
Indices: 1167644--1167720 Score: 72
Period size: 13 Copynumber: 5.8 Consensus size: 13
1167634 GTTTATTTTT
1167644 TTTTATTTTTATA
1 TTTTATTTTTATA
1167657 TTTTATATTTT-TA
1 TTTTAT-TTTTATA
1167670 TTTTATTTTTATTA
1 TTTTATTTTTA-TA
1167684 TTGTT-TTTATATATA
1 TT-TTATTT-T-TATA
1167699 TATTT-TTTTTAT-
1 T-TTTATTTTTATA
1167711 TTTTATTTTT
1 TTTTATTTTT
1167721 TGTATTTATT
Statistics
Matches: 56, Mismatches: 0, Indels: 17
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.05
12 10 0.18
13 17 0.30
14 12 0.21
15 11 0.20
16 3 0.05
ACGTcount: A:0.21, C:0.00, G:0.01, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTATA
Found at i:1167685 original size:35 final size:34
Alignment explanation
Indices: 1167635--1167721 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
1167625 AATAAGTAAG
* *
1167635 TTTATTTTTTTTTATTTTTATAT-TTTATATTTTTAT
1 TTTA-TTTTTATTATTTTTATATATATATA-TTTT-T
*
1167671 TTTATTTTTATTATTGTTTTTATATATATATTTTT
1 TTTATTTTTATTATT-TTTATATATATATATTTTT
1167706 TTTATTTTTATT-TTTT
1 TTTATTTTTATTATTTT
1167722 GTATTTATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
33 2 0.04
34 2 0.04
35 23 0.50
36 14 0.30
37 5 0.11
ACGTcount: A:0.20, C:0.00, G:0.01, T:0.79
Consensus pattern (34 bp):
TTTATTTTTATTATTTTTATATATATATATTTTT
Found at i:1167690 original size:12 final size:11
Alignment explanation
Indices: 1167635--1167719 Score: 75
Period size: 11 Copynumber: 7.3 Consensus size: 11
1167625 AATAAGTAAG
1167635 TTTATTTTT-T
1 TTTATTTTTAT
1167645 TTTATTTTTATATT
1 TTTA-TTTT-TA-T
1167659 TTATATTTTTAT
1 TT-TATTTTTAT
1167671 TTTATTTTTAT
1 TTTATTTTTAT
*
1167682 TATTGTTTTTAT
1 T-TTATTTTTAT
*
1167694 ATATATATTTT-T
1 -TTTAT-TTTTAT
1167706 TTTATTTTTAT
1 TTTATTTTTAT
1167717 TTT
1 TTT
1167720 TTGTATTTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
10 8 0.13
11 22 0.35
12 16 0.26
13 7 0.11
14 7 0.11
15 2 0.03
ACGTcount: A:0.20, C:0.00, G:0.01, T:0.79
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:1167693 original size:9 final size:8
Alignment explanation
Indices: 1167641--1167734 Score: 66
Period size: 8 Copynumber: 11.2 Consensus size: 8
1167631 TAAGTTTATT
1167641 TTTTTTTA
1 TTTTTTTA
*
1167649 TTTTTATA
1 TTTTTTTA
1167657 TTTTATATT-
1 TTTT-T-TTA
1167666 TTTATTTTA
1 TTT-TTTTA
1167675 TTTTTATTA
1 TTTTT-TTA
1167684 TTGTTTTTA
1 TT-TTTTTA
* * *
1167693 TATATATA
1 TTTTTTTA
1167701 TTTTTTT-
1 TTTTTTTA
*
1167708 TATTTTTA
1 TTTTTTTA
1167716 TTTTTTGTA
1 TTTTTT-TA
*
1167725 TTTATTTA
1 TTTTTTTA
1167733 TT
1 TT
1167735 CATTACTACT
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
7 6 0.09
8 32 0.48
9 24 0.36
10 5 0.07
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (8 bp):
TTTTTTTA
Found at i:1167721 original size:13 final size:13
Alignment explanation
Indices: 1167639--1167731 Score: 61
Period size: 13 Copynumber: 7.1 Consensus size: 13
1167629 AGTAAGTTTA
1167639 TTTT-TTTTTA-T
1 TTTTATTTTTATT
1167650 TTTTATATTTTATAT
1 TTTTAT-TTTTAT-T
1167665 TTTTA-TTTTA-T
1 TTTTATTTTTATT
* *
1167676 TTTTATTATTGTT
1 TTTTATTTTTATT
1167689 TTTATATATATATT-TT
1 TTT-TAT-T-T-TTATT
1167705 TTTTATTTTTATT
1 TTTTATTTTTATT
* *
1167718 TTTTGTATTTATT
1 TTTTATTTTTATT
1167731 T
1 T
1167732 ATTCATTACT
Statistics
Matches: 66, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
11 10 0.15
12 6 0.09
13 29 0.44
14 4 0.06
15 10 0.15
16 5 0.08
17 2 0.03
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:1167757 original size:61 final size:60
Alignment explanation
Indices: 1167640--1167788 Score: 151
Period size: 61 Copynumber: 2.5 Consensus size: 60
1167630 GTAAGTTTAT
* * * * *
1167640 TTTTTTTTATTTTTATATTTTATATTTTTATTTTATTTTTATTATTGTTTTTATATATATA
1 TTTTTTTTATTTTTAT-TTTTATATATTTATTTTATTATTACTACTATTTTTATATATATA
*
1167701 TTTTTTTTATTTTTATTTTT-TGTATTTA-TTTATTCATTACTACTATTTATTAATATATATA
1 TTTTTTTTATTTTTATTTTTATATATTTATTTTATT-ATTACTACTATTT-TT-ATATATATA
* * * *
1167762 TCTTTATTATTATTATTATTAT-TATTT
1 TTTTTTTTATTTTTATTTTTATATATTT
1167789 TTCTTTTTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
58 6 0.08
59 15 0.20
60 6 0.08
61 46 0.62
62 1 0.01
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (60 bp):
TTTTTTTTATTTTTATTTTTATATATTTATTTTATTATTACTACTATTTTTATATATATA
Found at i:1167880 original size:12 final size:12
Alignment explanation
Indices: 1167842--1167881 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
1167832 TTATATGTTA
1167842 TAATTTATCTGT
1 TAATTTATCTGT
1167854 T-ATTTAAT-T-T
1 TAATTT-ATCTGT
1167864 TAATTTATCTGT
1 TAATTTATCTGT
1167876 TAATTT
1 TAATTT
1167882 TTTTGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (12 bp):
TAATTTATCTGT
Found at i:1167890 original size:21 final size:21
Alignment explanation
Indices: 1167842--1167904 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
1167832 TTATATGTTA
1167842 TAATTTATCTGTTATTTAATTT
1 TAATTTATCTGTTATTT-ATTT
1167864 TAATTTATCTGTTAATTT-TTT
1 TAATTTATCTGTT-ATTTATTT
* *
1167885 TGATTTAT-T-TGATTTATTT
1 TAATTTATCTGTTATTTATTT
1167904 T
1 T
1167905 TATTAATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
18 4 0.11
19 5 0.14
20 1 0.03
21 10 0.27
22 13 0.35
23 4 0.11
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (21 bp):
TAATTTATCTGTTATTTATTT
Found at i:1167895 original size:9 final size:9
Alignment explanation
Indices: 1167878--1167946 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
1167868 TTATCTGTTA
*
1167878 ATTTTTTTG
1 ATTTATTTG
1167887 ATTTATTTG
1 ATTTATTTG
*
1167896 ATTTATTTTT
1 ATTTA-TTTG
*
1167906 ATTAATATT-
1 ATTTAT-TTG
1167915 -TTTATTTG
1 ATTTATTTG
* *
1167923 ATTTTTTTT
1 ATTTATTTG
*
1167932 ATTTTTTTG
1 ATTTATTTG
1167941 ATTTAT
1 ATTTAT
1167947 CCGGCTAAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
7 2 0.04
8 4 0.08
9 33 0.69
10 9 0.19
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (9 bp):
ATTTATTTG
Found at i:1167911 original size:32 final size:32
Alignment explanation
Indices: 1167875--1167937 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
1167865 AATTTATCTG
*
1167875 TTAATTTTTTTGATTT-ATTTGATTTATTTTTA
1 TTAATATTTTT-ATTTGATTTGATTTATTTTTA
**
1167907 TTAATATTTTTATTTGATTTTTTTTATTTTT
1 TTAATATTTTTATTTGATTTGATTTATTTTT
1167938 TTGATTTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.75
Consensus pattern (32 bp):
TTAATATTTTTATTTGATTTGATTTATTTTTA
Found at i:1168831 original size:11 final size:11
Alignment explanation
Indices: 1168817--1168911 Score: 70
Period size: 11 Copynumber: 8.4 Consensus size: 11
1168807 TTTAATATTC
*
1168817 TTTTATCTTTA
1 TTTTATTTTTA
1168828 TTTTATTTTTA
1 TTTTATTTTTA
1168839 TTTT-TGTTTTA
1 TTTTAT-TTTTA
* *
1168850 CTTT-TCTTTA
1 TTTTATTTTTA
1168860 TTTTATTTTTA
1 TTTTATTTTTA
*
1168871 TTTTTTATTTTCA
1 --TTTTATTTTTA
*
1168884 CTTTTA-TTTTG
1 -TTTTATTTTTA
1168895 TTTTATTATTTTA
1 TTTTA-T-TTTTA
1168908 TTTT
1 TTTT
1168912 CTTTAAATAA
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
10 13 0.19
11 31 0.46
12 5 0.07
13 18 0.27
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:1168834 original size:5 final size:5
Alignment explanation
Indices: 1168803--1168911 Score: 66
Period size: 5 Copynumber: 21.6 Consensus size: 5
1168793 TTAGATTAGG
* * * *
1168803 TTTAT TTAAT ATTCT TTTAT CTTTAT TTTATT TTTATT TTTGT TTTACT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTA-T
* * *
1168852 TTT-C TTTAT TTTAT TTT-T ATT-T TTTAT TTTCACT TTTAT TTTGT TTTA-
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT-A-T TTTAT TTTAT TTTAT
1168900 -TTAT TTTAT TTT
1 TTTAT TTTAT TTT
1168912 CTTTAAATAA
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
3 3 0.04
4 9 0.11
5 44 0.54
6 21 0.26
7 4 0.05
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:1168837 original size:6 final size:6
Alignment explanation
Indices: 1168817--1168911 Score: 63
Period size: 6 Copynumber: 15.5 Consensus size: 6
1168807 TTTAATATTC
* * *
1168817 TTTTAT CTTTA- TTTTAT TTTTAT TTTT-G TTTTACT TTTCTTT ATTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T TTT-TAT -TTTTAT
* *
1168866 TTTTATT TTTTAT TTTCAC TTTTAT TTTGT-T TTATTA- TTTTAT TTT
1 TTTTA-T TTTTAT TTTTAT TTTTAT TTT-TAT TT-TTAT TTTTAT TTT
1168912 CTTTAAATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
5 11 0.16
6 40 0.58
7 14 0.20
8 4 0.06
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:1168839 original size:32 final size:31
Alignment explanation
Indices: 1168803--1168873 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
1168793 TTAGATTAGG
1168803 TTTATTTAATATTCTT-TTATCTTTATTTTATT
1 TTTATTT-ATATT-TTATTATCTTTATTTTATT
* * *
1168835 TTTATTTTTGTTTTACTTTTCTTTATTTTATT
1 TTTATTTATATTTTA-TTATCTTTATTTTATT
1168867 TTTATTT
1 TTTATTT
1168874 TTTATTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.06
31 3 0.09
32 29 0.85
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (31 bp):
TTTATTTATATTTTATTATCTTTATTTTATT
Found at i:1168874 original size:32 final size:33
Alignment explanation
Indices: 1168822--1168911 Score: 110
Period size: 32 Copynumber: 2.6 Consensus size: 33
1168812 TATTCTTTTA
*
1168822 TCTTTATTTTATTTTTATTTTTGTTTT-ACTTT
1 TCTTTATTTTATTTTTATTTTTATTTTCACTTT
1168854 TCTTTATTTTATTTTTATTTTTTATTTTCACTTT
1 TCTTTATTTTATTTTTA-TTTTTATTTTCACTTT
* *
1168888 TATTTTGTTTTATTATTTTATTTT
1 T-CTTTATTTTA-T-TTTTATTTT
1168912 CTTTAAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
32 17 0.34
33 9 0.18
34 6 0.12
35 8 0.16
36 5 0.10
37 5 0.10
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (33 bp):
TCTTTATTTTATTTTTATTTTTATTTTCACTTT
Found at i:1168968 original size:57 final size:55
Alignment explanation
Indices: 1168907--1169427 Score: 275
Period size: 57 Copynumber: 9.1 Consensus size: 55
1168897 TTATTATTTT
* * *
1168907 ATTTTCTTTAAATAAAATCCAAAAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCA
1 ATTTTCTTTAAATAAAAT-CTAAAAAAA-TGTTTTTGAGGAAAAGTTGAAAGTATCA
* * * * * * *
1168964 ATTTTCCTTAAAAATAAATTTTCAAAAAAGGTTTTTTTGAGGAAAAATTGAAAATATCA
1 ATTTT-CTT-TAAATAAAATCT-AAAAAA-ATGTTTTTGAGGAAAAGTTGAAAGTATCA
* * * * *
1169023 ATTTTTCTTAAAAATAAACTTTCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATTA
1 A-TTTTCTT-TAAATAAAATCT-AAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCA
* ***
1169081 ATTTTCTTTAAAAATAAAT-TTTTAAAATGTCTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCTTTAAATA-AAATCTAAAAAAATGT-TTTTGAGGAAAAGTTGAAAGTATCA
** * * * * * *
1169137 ATTTTTCTCGAAATTAAAGTTTTCAAAAATTATTTTTG-GAAAAAAGTTGAAAGTATCA
1 A-TTTTCTTTAAA-TAAA-ATCTAAAAAAATGTTTTTGAG-GAAAAGTTGAAAGTATCA
* * ** **
1169195 ATTTT-TCTTAAAAATAAATTTTTAAAACGGTTTTTGAGGAAAA-TATGAAAGTATCA
1 ATTTTCT-TTAAATA-AAATCTAAAAAAATGTTTTTGAGGAAAAGT-TGAAAGTATCA
** ** * * ** *
1169251 ATTTTCCTCGAAATTAAGGTTTCCAAAAAACATTTTTGGGGAAAAGTTGAAAGTATCA
1 ATTTT-CTTTAAA-TAAAATCT-AAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCA
*
1169309 ATTTT-TTTAAAAATAAAATTTTTAAAAAAA-GTTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCTTT--AAATAAAA--TCTAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCA
* * * * * * *
1169366 ATTTT-TCTCAAGATTAAAATTTTTAAAAAATATTTTGGA-AAAAAGTTGAAAGTTTCA
1 ATTTTCT-TTAA-A-TAAAA-TCTAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCA
1169423 ATTTT
1 ATTTT
1169428 TCCTACACAA
Statistics
Matches: 367, Mismatches: 68, Indels: 58
0.74 0.14 0.12
Matches are distributed among these distances:
55 7 0.02
56 68 0.19
57 110 0.30
58 107 0.29
59 71 0.19
60 4 0.01
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.38
Consensus pattern (55 bp):
ATTTTCTTTAAATAAAATCTAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:1169084 original size:58 final size:58
Alignment explanation
Indices: 1168938--1169429 Score: 476
Period size: 58 Copynumber: 8.6 Consensus size: 58
1168928 AAAAAAACTA
* *
1168938 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAAAGG
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGG
* * *
1168995 TTTTTTTGAGGAAAAATTGAAAATATCAATTTTTCTTAAAAATAAACTTTCAAAAAAAGG
1 --TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGG
* * *
1169055 TTTTTGAGGAAAAGTTGAAAGTATTAA-TTTTCTTTAAAAATAAATTTT---TAAAATG
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAATTTTCAAAAAAAGG
** * *
1169110 TCTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTCAAAAATTA--
1 T-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTCAAAAA-AAGG
* * *
1169169 TTTTTG-GAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT--TAAAACGG
1 TTTTTGAG-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGG
* ** * ** * **
1169225 TTTTTGAGGAAAA-TATGAAAGTATCAATTTTCCTCGAAATTAAGGTTTCCAAAAAACA
1 TTTTTGAGGAAAAGT-TGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGG
* *
1169283 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTT-TTAAAAATAAAATTTTTAAAAAAA-G
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTCAAAAAAAGG
* * * *
1169340 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAGATTAAAATTTTTAAAAAATA--
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTCAAAAAA-AGG
* * *
1169398 TTTTGGA-AAAAAGTTGAAAGTTTCAATTTTTC
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
1169430 CTACACAAAA
Statistics
Matches: 361, Mismatches: 52, Indels: 42
0.79 0.11 0.09
Matches are distributed among these distances:
55 10 0.03
56 70 0.19
57 79 0.22
58 144 0.40
59 47 0.13
60 10 0.03
61 1 0.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.38
Consensus pattern (58 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGG
Found at i:1169441 original size:114 final size:114
Alignment explanation
Indices: 1168929--1169429 Score: 602
Period size: 114 Copynumber: 4.4 Consensus size: 114
1168919 TAAAATCCAA
* * *
1168929 AAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAG
1 AAAAAA-TATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT-TAAAAAG
* * ** * * *
1168994 GTTTTTTTGAGGAAAAATTGAAAATATCAATTTTTCTTAAAAATAAACTTTCA
64 G--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC
** * *
1169047 AAAAAAGGTTTTT-GAGGAAAAGTTGAAAGTATTAA-TTTTCTTTAAAAATAAATTTTT-AAAAT
1 AAAAAATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAATTTTTAAAAAG
*
1169109 GTCTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC
64 GT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC
* * *
1169161 AAAAATTATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTAAAACGGT
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTAAAAAGGT
* *
1169226 TTTTGAGGAAAA-TATGAAAGTATCAATTTTCCTCGAAATTAAGGTTTCC
66 TTTTGAGGAAAAGT-TGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC
* * *
1169275 AAAAAACATTTTTGGGGAAAAGTTGAAAGTATCAATTTTT-TTAAAAATAAAATTTTTAAAAAAA
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTT-AAAAAG
* **
1169339 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTC-AAGATTAAAATTTTT
64 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAA-ATTAAAGTTTCC
* *
1169390 AAAAAATA-TTTTGGAAAAAAGTTGAAAGTTTCAATTTTTC
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTC
1169430 CTACACAAAA
Statistics
Matches: 331, Mismatches: 40, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
113 10 0.03
114 202 0.61
115 69 0.21
116 6 0.02
117 38 0.11
118 6 0.02
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (114 bp):
AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTAAAAAGGT
TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTCC
Found at i:1176116 original size:59 final size:59
Alignment explanation
Indices: 1176048--1176510 Score: 558
Period size: 59 Copynumber: 7.7 Consensus size: 59
1176038 TCTTGTGCAG
* * *
1176048 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTCAA
* *
1176107 GGGAAATTGAT-CTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTG-AAA-TTTTATTTTCAA
* ** * *
1176166 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CCTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTCAA
1176224 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT-G-AAATTTT-ATTTTCAA
** * ** *
1176286 GGAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAAAACCTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-----CCAAAAATATTTTTTTTGAAATTTTATTTTCAA
* * * * *
1176350 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTCTTTGGAAACTTTGATTTTCCA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAA-TTTTATTTTCAA
* * *
1176409 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACT-TTTTTTTTCAAAATTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTTGAAATTTTATTTTCAA
*
1176468 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
1176511 ATTTTTATTT
Statistics
Matches: 345, Mismatches: 42, Indels: 34
0.82 0.10 0.08
Matches are distributed among these distances:
57 8 0.02
58 75 0.22
59 133 0.39
60 38 0.11
61 6 0.02
62 33 0.10
64 32 0.09
65 7 0.02
66 1 0.00
67 12 0.03
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTCAA
Found at i:1176256 original size:118 final size:118
Alignment explanation
Indices: 1176048--1176509 Score: 626
Period size: 118 Copynumber: 3.8 Consensus size: 118
1176038 TCTTGTGCAG
** * * * **
1176048 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTGAAATTTTAATTTCGAGGGAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAA-CCTTTTTTTGAAAATTTATTTTCAAGAAAA
1176112 ATTGAT-CTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTGATTTTCAA
64 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTGATTTTCAA
* *
1176166 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTCAAGAAAAAT
*
1176231 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAAATTTTGATTTTCAA
66 TGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTT-GAAAACTTTGATTTTCAA
* * *
1176286 GGAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAAAACC-TTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCT-------CAAAAACCTTTTTTTGAAAATTTATTTTCAA
* * *
1176350 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTCTTTGGAAACTTTGATTTTCCA
59 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTGATTTTCAA
* *
1176409 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTCAAAATTTATTTTCAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAC-CTTTTTTTGAAAATTTATTTTCAAGAAAAA
1176474 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
65 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1176510 TATTTTTATT
Statistics
Matches: 309, Mismatches: 21, Indels: 27
0.87 0.06 0.08
Matches are distributed among these distances:
116 6 0.02
117 29 0.09
118 108 0.35
119 13 0.04
120 44 0.14
123 42 0.14
124 5 0.02
126 55 0.18
127 7 0.02
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTCAAGAAAAAT
TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTGATTTTCAA
Found at i:1176558 original size:6 final size:5
Alignment explanation
Indices: 1176525--1176616 Score: 77
Period size: 5 Copynumber: 18.6 Consensus size: 5
1176515 TTATTTAAAG
*
1176525 AAAAT AAAAT --AAT AAAAC AAAAT AAAAAT GAAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT
* * *
1176575 -AAAG AAAAG AAAAGT AAAAC AAAA- ATAAA- AAAAT AAAAT AAA
1 AAAAT AAAAT AAAA-T AAAAT AAAAT A-AAAT AAAAT AAAAT AAA
1176617 GGTAAAAAGA
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
3 3 0.04
4 7 0.09
5 50 0.68
6 14 0.19
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:1176558 original size:17 final size:16
Alignment explanation
Indices: 1176525--1176605 Score: 56
Period size: 17 Copynumber: 4.6 Consensus size: 16
1176515 TTATTTAAAG
1176525 AAAATAAAATAATAAAAC
1 AAAAT-AAA-AATAAAAC
*
1176543 AAAATAAAAATGAAAAT
1 AAAATAAAAAT-AAAAC
*
1176560 AAAAT-AAAATAAAATA
1 AAAATAAAAATAAAA-C
*
1176576 AAGAAAAGAAAAGTAAAAC
1 AA-AATA-AAAA-TAAAAC
1176595 AAAAATAAAAA
1 -AAAATAAAAA
1176606 AATAAAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
15 4 0.08
16 10 0.20
17 14 0.27
18 9 0.18
19 7 0.14
20 7 0.14
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAATAAAAATAAAAC
Found at i:1176565 original size:35 final size:35
Alignment explanation
Indices: 1176525--1176612 Score: 97
Period size: 36 Copynumber: 2.5 Consensus size: 35
1176515 TTATTTAAAG
* *
1176525 AAAATAAAATAATAAAACAAAATAAAAATGAAAA-T
1 AAAATAAAATAATAAAACAAAAGAAAAAT-AAAACA
* * *
1176560 AAAATAAAATAAAATAAAGAAAAGAAAAGTAAAACA
1 AAAATAAAATAATA-AAACAAAAGAAAAATAAAACA
*
1176596 AAAATAAAAAAATAAAA
1 AAAATAAAATAATAAAA
1176613 TAAAGGTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
35 20 0.45
36 24 0.55
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (35 bp):
AAAATAAAATAATAAAACAAAAGAAAAATAAAACA
Found at i:1176593 original size:30 final size:29
Alignment explanation
Indices: 1176520--1176612 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 29
1176510 TATTTTTATT
* *
1176520 TAAAGAAAATAAAAT--AATAAAACAAAA
1 TAAAGAAAAGAAAATAAAATAAAATAAAA
*
1176547 T-AA-AAATGAAAATAAAATAAAATAAAA
1 TAAAGAAAAGAAAATAAAATAAAATAAAA
*
1176574 TAAAGAAAAGAAAAGTAAAACAAAAATAAAA
1 TAAAGAAAAGAAAA-TAAAA-TAAAATAAAA
*
1176605 -AAATAAAA
1 TAAAGAAAA
1176613 TAAAGGTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
25 8 0.15
26 2 0.04
27 13 0.24
28 2 0.04
29 8 0.15
30 12 0.22
31 9 0.17
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.14
Consensus pattern (29 bp):
TAAAGAAAAGAAAATAAAATAAAATAAAA
Found at i:1177603 original size:24 final size:23
Alignment explanation
Indices: 1177525--1177605 Score: 58
Period size: 24 Copynumber: 3.4 Consensus size: 23
1177515 AAGAAGAAAG
*
1177525 AAAAATAATAATAATTAGATAAA-C
1 AAAAA-AATAA-AATAAGATAAATC
* * *
1177549 GAAAAAAATAAAAAAAAATATAT-
1 -AAAAAAATAAAATAAGATAAATC
1177572 AATTAAAAATAAAATAAGATAAATC
1 AA--AAAAATAAAATAAGATAAATC
*
1177597 CAAAAAATA
1 AAAAAAATA
1177606 TTACAAGATA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
22 2 0.05
23 14 0.32
24 22 0.50
25 6 0.14
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.21
Consensus pattern (23 bp):
AAAAAAATAAAATAAGATAAATC
Found at i:1177633 original size:17 final size:17
Alignment explanation
Indices: 1177555--1177673 Score: 52
Period size: 17 Copynumber: 6.6 Consensus size: 17
1177545 AAACGAAAAA
1177555 AATAAA-AAAAAATATAT
1 AATAAATAAAAAATA-AT
1177572 AATTAAA-AATAAAATAA-
1 AA-TAAATAA-AAAATAAT
* *
1177589 GATAAATCCAAAAAATATT
1 AATAAAT--AAAAAATAAT
*
1177608 ACA-AGATAAAAAATAAT
1 A-ATAAATAAAAAATAAT
1177625 AATAAATAAATTATAAT-AT
1 AATAAATAAA--A-AATAAT
*
1177644 AAT-AATAAATATATAACT
1 AATAAATAAA-AAATAA-T
1177662 ATATAAATAAAA
1 A-ATAAATAAAA
1177674 TACATATAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 28
0.70 0.06 0.24
Matches are distributed among these distances:
16 7 0.09
17 22 0.28
18 21 0.26
19 20 0.25
20 10 0.12
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (17 bp):
AATAAATAAAAAATAAT
Found at i:1177647 original size:19 final size:21
Alignment explanation
Indices: 1177623--1177672 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
1177613 ATAAAAAATA
1177623 ATAATAAATAAAT-TATAA-T
1 ATAATAAATAAATATATAACT
1177642 ATAAT-AATAAATATATAACT
1 ATAATAAATAAATATATAACT
1177662 AT-ATAAATAAA
1 ATAATAAATAAA
1177673 ATACATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.25
19 12 0.43
20 9 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAATAAATAAATATATAACT
Found at i:1177664 original size:25 final size:25
Alignment explanation
Indices: 1177618--1177683 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
1177608 ACAAGATAAA
1177618 AAATAATAAT-AA-ATAAA-T-TAT
1 AAATAATAATAAATATAAACTATAT
1177639 AATATAATAATAAATATATAACTATAT
1 AA-ATAATAATAAATATA-AACTATAT
*
1177666 AAATAA-AATACATATAAA
1 AAATAATAATAAATATAAA
1177684 TATTAACAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 2 0.05
22 8 0.21
23 2 0.05
24 5 0.13
25 11 0.29
26 5 0.13
27 5 0.13
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAATAATAAATATAAACTATAT
Found at i:1177665 original size:22 final size:22
Alignment explanation
Indices: 1177620--1177667 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1177610 AAGATAAAAA
*
1177620 ATAATAATAAATAAATTATAAT
1 ATAATAATAAATAAATAATAAT
*
1177642 ATAATAATAAATATATAACT-AT
1 ATAATAATAAATAAATAA-TAAT
1177664 ATAA
1 ATAA
1177668 ATAAAATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAATAATAAATAAATAATAAT
Found at i:1177968 original size:15 final size:14
Alignment explanation
Indices: 1177950--1178009 Score: 70
Period size: 15 Copynumber: 4.2 Consensus size: 14
1177940 AATATTTTCA
1177950 TTTTTTGTTTTTTT
1 TTTTTTGTTTTTTT
*
1177964 GTTTTTTG--TGTTT
1 -TTTTTTGTTTTTTT
1177977 TTTTTTGTTCTTTTT
1 TTTTTTGTT-TTTTT
1177992 TTTTTTGTTTTTGTT
1 TTTTTTGTTTTT-TT
1178007 TTT
1 TTT
1178010 GACCAAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 7 0.18
13 4 0.10
14 3 0.08
15 25 0.64
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.87
Consensus pattern (14 bp):
TTTTTTGTTTTTTT
Found at i:1177982 original size:12 final size:12
Alignment explanation
Indices: 1177965--1178008 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
1177955 TGTTTTTTTG
1177965 TTTTTTGTGTTT
1 TTTTTTGTGTTT
*
1177977 TTTTTTGTTCTTT
1 TTTTTTG-TGTTT
*
1177990 TTTTTTTTGTTT
1 TTTTTTGTGTTT
1178002 TTGTTTT
1 TT-TTTT
1178009 TGACCAAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 13 0.48
13 14 0.52
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.86
Consensus pattern (12 bp):
TTTTTTGTGTTT
Found at i:1177985 original size:27 final size:26
Alignment explanation
Indices: 1177950--1178010 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
1177940 AATATTTTCA
1177950 TTTTTTGTT-TTTTTGTTTTTTGTGTTT
1 TTTTTTGTTCTTTTT-TTTTTTGT-TTT
1177977 TTTTTTGTTCTTTTTTTTTTTGTTTT
1 TTTTTTGTTCTTTTTTTTTTTGTTTT
1178003 TGTTTTTG
1 T-TTTTTG
1178011 ACCAAAGCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 4 0.12
27 23 0.72
28 5 0.16
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (26 bp):
TTTTTTGTTCTTTTTTTTTTTGTTTT
Found at i:1178111 original size:41 final size:41
Alignment explanation
Indices: 1178017--1178188 Score: 265
Period size: 41 Copynumber: 4.1 Consensus size: 41
1178007 TTTGACCAAA
* *
1178017 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTG-GAAA-AGTAAATT
*
1178060 GCTCCTCTAAACAGAAGCACCACGACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTGGAAAAGTAAATT
*
1178101 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTGGAAAAGTAAATT
*
1178142 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTGGAAAAGTAAATT
1178183 GCTCCT
1 GCTCCT
1178189 TGACAATCAT
Statistics
Matches: 123, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
40 1 0.01
41 96 0.78
42 3 0.02
43 23 0.19
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTGGAAAAGTAAATT
Found at i:1178454 original size:16 final size:16
Alignment explanation
Indices: 1178433--1178486 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
1178423 GCATGCTATG
1178433 CAATGCATATGAATTT
1 CAATGCATATGAATTT
* *
1178449 CAATGC--ATG-CTATG
1 CAATGCATATGAAT-TT
*
1178463 CAATGCATATGAATAT
1 CAATGCATATGAATTT
1178479 CAATGCAT
1 CAATGCAT
1178487 GCTATGCAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
13 1 0.03
14 10 0.34
16 17 0.59
17 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (16 bp):
CAATGCATATGAATTT
Found at i:1178456 original size:30 final size:30
Alignment explanation
Indices: 1178422--1178494 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
1178412 CTGAAAGTAG
*
1178422 TGCATGCTATGCAATGCATATGAATTTCAA
1 TGCATGCTATGCAATGCATATGAATATCAA
1178452 TGCATGCTATGCAATGCATATGAATATCAA
1 TGCATGCTATGCAATGCATATGAATATCAA
1178482 TGCATGCTATGCA
1 TGCATGCTATGCA
1178495 GATGTTGGCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (30 bp):
TGCATGCTATGCAATGCATATGAATATCAA
Found at i:1179244 original size:8 final size:8
Alignment explanation
Indices: 1179231--1179335 Score: 68
Period size: 8 Copynumber: 12.0 Consensus size: 8
1179221 TCATTCACTT
1179231 TTTTTTTC
1 TTTTTTTC
1179239 TTTTTTTCC
1 TTTTTTT-C
*
1179248 ATTTTTTC
1 TTTTTTTC
1179256 ATTTTTTTTC
1 --TTTTTTTC
1179266 ATCATTTTTTC
1 -T--TTTTTTC
* *
1179277 GTTTTTTA
1 TTTTTTTC
1179285 TTTTTTTC
1 TTTTTTTC
1179293 ATTTTTTTC
1 -TTTTTTTC
*
1179302 ATTTTTTCC
1 -TTTTTTTC
*
1179311 ATTTTTTC
1 TTTTTTTC
1179319 ATTTTTTT-
1 -TTTTTTTC
1179327 TATTTTTTC
1 T-TTTTTTC
1179336 AAGCATAGTA
Statistics
Matches: 77, Mismatches: 11, Indels: 17
0.73 0.10 0.16
Matches are distributed among these distances:
7 1 0.01
8 32 0.42
9 30 0.39
10 7 0.09
11 7 0.09
ACGTcount: A:0.10, C:0.12, G:0.01, T:0.77
Consensus pattern (8 bp):
TTTTTTTC
Found at i:1179244 original size:9 final size:9
Alignment explanation
Indices: 1179230--1179334 Score: 56
Period size: 9 Copynumber: 11.7 Consensus size: 9
1179220 TTCATTCACT
1179230 TTTTTTTTC
1 TTTTTTTTC
1179239 -TTTTTTTC
1 TTTTTTTTC
**
1179247 CATTTTTTC
1 TTTTTTTTC
1179256 ATTTTTTTTC
1 -TTTTTTTTC
*
1179266 ATCATTTTTTC
1 -T-TTTTTTTC
*
1179277 -GTTTTTT-
1 TTTTTTTTC
*
1179284 ATTTTTTTC
1 TTTTTTTTC
*
1179293 ATTTTTTTC
1 TTTTTTTTC
*
1179302 -ATTTTTTC
1 TTTTTTTTC
**
1179310 CATTTTTTC
1 TTTTTTTTC
*
1179319 ATTTTTTTTA
1 -TTTTTTTTC
1179329 TTTTTT
1 TTTTTT
1179335 CAAGCATAGT
Statistics
Matches: 79, Mismatches: 10, Indels: 14
0.77 0.10 0.14
Matches are distributed among these distances:
8 27 0.34
9 30 0.38
10 15 0.19
11 7 0.09
ACGTcount: A:0.10, C:0.11, G:0.01, T:0.78
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:1179252 original size:17 final size:16
Alignment explanation
Indices: 1179232--1179336 Score: 86
Period size: 17 Copynumber: 6.0 Consensus size: 16
1179222 CATTCACTTT
1179232 TTTTTTCTTTTTTTCCA
1 TTTTTTCTTTTTTT-CA
1179249 TTTTTTCATTTTTTTTCATCA
1 TTTTTTC---TTTTTT--TCA
*
1179270 TTTTTTCGTTTTTT-A
1 TTTTTTCTTTTTTTCA
1179285 TTTTTTTCATTTTTTTCA
1 -TTTTTTC-TTTTTTTCA
*
1179303 TTTTTTCCATTTTTTCA
1 TTTTTT-CTTTTTTTCA
*
1179320 TTTTTTTTATTTTTTCA
1 TTTTTTCT-TTTTTTCA
1179337 AGCATAGTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 20
0.74 0.05 0.20
Matches are distributed among these distances:
15 1 0.01
16 8 0.11
17 41 0.56
18 7 0.10
20 6 0.08
21 9 0.12
22 1 0.01
ACGTcount: A:0.10, C:0.12, G:0.01, T:0.76
Consensus pattern (16 bp):
TTTTTTCTTTTTTTCA
Found at i:1184241 original size:16 final size:17
Alignment explanation
Indices: 1184200--1184241 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
1184190 CTCAGGATTA
1184200 TTCTA-CCTTTCTCCTT
1 TTCTAGCCTTTCTCCTT
*
1184216 TTTTAG-CTTTCT-CTT
1 TTCTAGCCTTTCTCCTT
1184231 TTCTAGCCTTT
1 TTCTAGCCTTT
1184242 TCTAGCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.07, C:0.29, G:0.05, T:0.60
Consensus pattern (17 bp):
TTCTAGCCTTTCTCCTT
Found at i:1187905 original size:62 final size:59
Alignment explanation
Indices: 1187715--1188173 Score: 449
Period size: 62 Copynumber: 7.7 Consensus size: 59
1187705 TTGTGCAGGA
*
1187715 AAAATTGATACTTTCAACTTTTCCCAAAAATA--TTTTTT-GAAA-TTTATTTT-GAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTGGAAATTTTATTTTCAAGG
* * * *
1187769 GAAATTGATACTTTTAATTTTTCCTCAAAAAGT-TATTTTTTT-GAAAATTTA--TT-AAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA-TAT-TTTTTTTGGAAATTTTATTTTCAAGG
1187826 AAAATTGATACTTTCAACTTTTCGCCAAAAATATTTTTTTTGAGAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTTTG-GAAATTTT-ATTTTCAAGG
* * * ** *
1187888 AAAATTGATATTTTCAACTTTTCCTAAAAAAAAAAACCTTTTTT-GAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC----CAAAAATATTTTTTTTGGAAATTTTATTTTCAAGG
1187950 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTGGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTTTGG-AAATTTT-ATTTTCAAGG
* * * ** *
1188012 AAAATTGATACTTTCGACTTTTCCTAAAAAAAAACCCTTTTTT-GAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC--CAAAAATA-TTTTTTTTGGAAATTTTATTTTCAAGG
* * * *
1188073 AAAATTGATACTTTCAACTTTTCCCCAACAATCTCTTTTTTT-GAAAATTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTT-CCCAAAAATAT-TTTTTTTGGAAATTTTATTTTCAAGG
* *
1188133 AAAATTAATACTTTCAACTTTTTCCAAAAAATATTTTTTTT
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTT
1188174 TATTTTTATT
Statistics
Matches: 337, Mismatches: 40, Indels: 51
0.79 0.09 0.12
Matches are distributed among these distances:
54 21 0.06
55 6 0.02
56 9 0.03
57 32 0.09
58 18 0.05
59 24 0.07
60 51 0.15
61 45 0.13
62 97 0.29
63 16 0.05
64 6 0.02
65 12 0.04
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.45
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTGGAAATTTTATTTTCAAGG
Found at i:1187953 original size:124 final size:119
Alignment explanation
Indices: 1187715--1188163 Score: 565
Period size: 124 Copynumber: 3.7 Consensus size: 119
1187705 TTGTGCAGGA
* *
1187715 AAAATTGATACTTTCAACTTTTCCCAAAAATA--TTTTTT-GAAATTTATTTT-GAGGGAAATTG
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTGGAAATTTATTTTCAAGGAAAATTG
* * * *** * *
1187776 ATACTTTTAATTTTTCCTCAAAAAGTTA-TTTTTTTGAAAATTTA---TTAAGG
66 ATACTTTCAACTTTTCCTAAAAAAAAAACCTTTTTTGAAATTTTATTTTTAAGG
1187826 AAAATTGATACTTTCAACTTTTCGCCAAAAATATTTTTTTTGAGAAATTTTGATTTTCAAGGAAA
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTTTG-GAAA-TTT-ATTTTCAAGGAAA
*
1187891 ATTGATATTTTCAACTTTTCCTAAAAAAAAAAACCTTTTTTGAAATTTTATTTTTAAGG
62 ATTGATACTTTCAACTTTTCCT-AAAAAAAAAACCTTTTTTGAAATTTTATTTTTAAGG
1187950 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTGGAAAATTTTGATTTTCAAGGAAA
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTTTGG-AAA-TTT-ATTTTCAAGGAAA
* *
1188015 ATTGATACTTTCGACTTTTCCTAAAAAAAAACCCTTTTTTGAAATTTTATTTTTAAGG
62 ATTGATACTTTCAACTTTTCCTAAAAAAAAAACCTTTTTTGAAATTTTATTTTTAAGG
* * * *
1188073 AAAATTGATACTTTCAACTTTTCCCCAACAATCTCTTTTTTTGAAAATTTATTTTCAAGAAAAAT
1 AAAATTGATACTTTCAACTTTT-CCCAAAAATAT-TTTTTTTGGAAATTTATTTTCAAGGAAAAT
*
1188138 TAATACTTTCAACTTTTTCC-AAAAAA
64 TGATACTTTCAAC-TTTTCCTAAAAAA
1188164 TATTTTTTTT
Statistics
Matches: 300, Mismatches: 21, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
111 23 0.08
112 9 0.03
114 6 0.02
116 4 0.01
117 3 0.01
118 5 0.02
119 24 0.08
120 6 0.02
121 45 0.15
122 9 0.03
123 69 0.23
124 97 0.32
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (119 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTGGAAATTTATTTTCAAGGAAAATTG
ATACTTTCAACTTTTCCTAAAAAAAAAACCTTTTTTGAAATTTTATTTTTAAGG
Found at i:1188222 original size:6 final size:5
Alignment explanation
Indices: 1188189--1188258 Score: 53
Period size: 5 Copynumber: 14.6 Consensus size: 5
1188179 TTATTTAAAG
*
1188189 AAAAT AAAAT --AAT AAAAC AAAAT AAAAAT GAAAAT AAAAT AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAA-AT
*
1188234 AAAGT AAAA- AAAA- AAAA- AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1188259 GGTAAAAAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
3 3 0.06
4 12 0.22
5 28 0.52
6 11 0.20
ACGTcount: A:0.81, C:0.01, G:0.04, T:0.13
Consensus pattern (5 bp):
AAAAT
Found at i:1188222 original size:17 final size:17
Alignment explanation
Indices: 1188189--1188231 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1188179 TTATTTAAAG
1188189 AAAATAAAATAATAAAAC
1 AAAAT-AAATAATAAAAC
*
1188207 AAAATAAA-AATGAAAAT
1 AAAATAAATAAT-AAAAC
1188224 AAAATAAA
1 AAAATAAA
1188232 GAAAAGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 15 0.65
18 5 0.22
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (17 bp):
AAAATAAATAATAAAAC
Found at i:1188246 original size:30 final size:30
Alignment explanation
Indices: 1188185--1188259 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
1188175 ATTTTTATTT
*
1188185 AAAGAAAATAAAAT-AATAAAACAAAATAA
1 AAAGAAAATAAAATAAAGAAAACAAAATAA
**
1188214 AAATGAAAATAAAATAAAGAAAAGTAAA-AA
1 AAA-GAAAATAAAATAAAGAAAACAAAATAA
1188244 AAA-AAAA-AAAATAAAG
1 AAAGAAAATAAAATAAAG
1188260 GTAAAAAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 9 0.22
28 4 0.10
29 3 0.07
30 16 0.39
31 9 0.22
ACGTcount: A:0.80, C:0.01, G:0.07, T:0.12
Consensus pattern (30 bp):
AAAGAAAATAAAATAAAGAAAACAAAATAA
Found at i:1188259 original size:27 final size:26
Alignment explanation
Indices: 1188184--1188259 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
1188174 TATTTTTATT
* * * *
1188184 TAAAGAAAATAAAATAATAAAACAAAA
1 TAAAAAAAAAAAAAAAAT-AAAGAAAA
** *
1188211 TAAAAATGAAAATAAAATAAAGAAAA
1 TAAAAAAAAAAAAAAAATAAAGAAAA
1188237 GTAAAAAAAAAAAAAAAATAAAG
1 -TAAAAAAAAAAAAAAAATAAAG
1188260 GTAAAAAGAA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 7 0.18
27 31 0.82
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (26 bp):
TAAAAAAAAAAAAAAAATAAAGAAAA
Found at i:1189300 original size:22 final size:22
Alignment explanation
Indices: 1189257--1189314 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
1189247 GATAAAAAAA
*
1189257 AATAATAAATACATTATAATAT
1 AATAATAAATACATAATAATAT
*
1189279 AATAATAAATATATAACT-ATAT
1 AATAATAAATACATAA-TAATAT
1189301 -A-AATAAAATACATA
1 AATAAT-AAATACATA
1189315 TAAATATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 3 0.10
21 9 0.29
22 18 0.58
23 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAATAAATACATAATAATAT
Found at i:1192100 original size:12 final size:12
Alignment explanation
Indices: 1192080--1192117 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1192070 AAAGGCAAAA
1192080 AAAATAAAAAGTG
1 AAAA-AAAAAGTG
1192093 -AAAAAAAAGTG
1 AAAAAAAAAGTG
1192104 AAAAAAAAAGTG
1 AAAAAAAAAGTG
1192116 AA
1 AA
1192118 TGAAAAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (12 bp):
AAAAAAAAAGTG
Found at i:1192112 original size:16 final size:17
Alignment explanation
Indices: 1192062--1192100 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
1192052 TAAAAAAAAT
1192062 AAAAATAAAAAGGCAAA
1 AAAAATAAAAAGGCAAA
1192079 AAAAATAAAAAGTG-AAA
1 AAAAATAAAAAG-GCAAA
1192096 AAAAA
1 AAAAA
1192101 GTGAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (17 bp):
AAAAATAAAAAGGCAAA
Found at i:1193200 original size:41 final size:41
Alignment explanation
Indices: 1193120--1193325 Score: 183
Period size: 41 Copynumber: 5.1 Consensus size: 41
1193110 ATGATTGTCA
* * * * * *
1193120 AGGAGTAATTTACTTTCCAAAAGTCATGGTGCCTTTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGAGCCTCTGATTAG
* * *
1193162 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAA
1 AGGAGCAATTTACTTTTCAAAGTCGTGGAGCCTCTGATTAG
* *
1193203 AGGAGCAATTTACTTTTCAAAGTCGTTGAGCTTCTGATTA-
1 AGGAGCAATTTACTTTTCAAAGTCGTGGAGCCTCTGATTAG
* *
1193243 AGTGAGCCATTTATTTTTC--A-T--T-GAGCCTCTGATTAG
1 AG-GAGCAATTTACTTTTCAAAGTCGTGGAGCCTCTGATTAG
* * * *
1193279 AGGAGCCATTTATTTTTTCAAAGTCGTTGAGCCTCTGCTTAG
1 AGGAGCAATTTA-CTTTTCAAAGTCGTGGAGCCTCTGATTAG
1193321 AGGAG
1 AGGAG
1193326 TTTTGATCAG
Statistics
Matches: 142, Mismatches: 13, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
35 22 0.15
36 9 0.06
38 2 0.01
39 2 0.01
40 2 0.01
41 71 0.50
42 34 0.24
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGAGCCTCTGATTAG
Found at i:1193274 original size:35 final size:35
Alignment explanation
Indices: 1193228--1193295 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
1193218 TTCAAAGTCG
*
1193228 TTGAGCTTCTGATTA-AGTGAGCCATTTATTTTTCA
1 TTGAGCCTCTGATTAGAG-GAGCCATTTATTTTTCA
1193263 TTGAGCCTCTGATTAGAGGAGCCATTTATTTTT
1 TTGAGCCTCTGATTAGAGGAGCCATTTATTTTT
1193296 TCAAAGTCGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 29 0.94
36 2 0.06
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (35 bp):
TTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCA
Found at i:1193507 original size:6 final size:6
Alignment explanation
Indices: 1193491--1193598 Score: 71
Period size: 6 Copynumber: 17.5 Consensus size: 6
1193481 GGTAAGTCTA
*
1193491 TTTTA- TTTTAT TTTTATT TTTGTAT TTTACAT TTTTA- TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTA-T TTT-TAT TTT-TAT TTTTAT TTTTAT TTTTAT
* * * * *
1193540 TTCTAT TATTAT TATTAT TATTAT TGTTT-T TATATATAT TTTT-C TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT T-T-T-TAT TTTTAT TTTTAT
1193590 TTTTAT TTT
1 TTTTAT TTT
1193599 ATGTATTTAT
Statistics
Matches: 84, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
5 14 0.17
6 47 0.56
7 17 0.20
8 4 0.05
9 2 0.02
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:1193546 original size:12 final size:11
Alignment explanation
Indices: 1193491--1193610 Score: 88
Period size: 11 Copynumber: 10.7 Consensus size: 11
1193481 GGTAAGTCTA
1193491 TTTTATTTTAT
1 TTTTATTTTAT
1193502 TTTTA--TT-T
1 TTTTATTTTAT
*
1193510 TTGTATTTTACAT
1 TTTTATTTT--AT
1193523 TTTTATTTTAT
1 TTTTATTTTAT
1193534 TTTTATTTCTAT
1 TTTTATTT-TAT
*
1193546 TATTA--TTAT
1 TTTTATTTTAT
* *
1193555 TATTATTATTGT
1 TTTTATT-TTAT
*
1193567 TTTTATATATAT
1 TTTTAT-TTTAT
*
1193579 TTTTCTTTTAT
1 TTTTATTTTAT
1193590 TTTTATTTTAT
1 TTTTATTTTAT
1193601 GTATTTATTT
1 -T-TTTATTT
1193611 ATTCATTACT
Statistics
Matches: 87, Mismatches: 10, Indels: 22
0.73 0.08 0.18
Matches are distributed among these distances:
8 5 0.06
9 10 0.11
10 3 0.03
11 29 0.33
12 23 0.26
13 17 0.20
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:1193561 original size:32 final size:29
Alignment explanation
Indices: 1193489--1193610 Score: 85
Period size: 32 Copynumber: 4.2 Consensus size: 29
1193479 TAGGTAAGTC
1193489 TATTTTATTTTATTTTTATTTTTGTATTT
1 TATTTTATTTTATTTTTATTTTTGTATTT
**
1193518 TA-CAT-TTTTA-TTTTA-TTTT-TATTT
1 TATTTTATTTTATTTTTATTTTTGTATTT
* * *
1193542 CTATTATTATTATTATTATTATTGTTTTTATATA
1 -TATT-TTATT-TTATTTTTATT-TTTGTAT-TT
*
1193576 TATTTTTCTTTTATTTTTATTTTATGTA-TT
1 TA-TTTTATTTTATTTTTATTTT-TGTATTT
1193606 TATTT
1 TATTT
1193611 ATTCATTACT
Statistics
Matches: 71, Mismatches: 10, Indels: 24
0.68 0.10 0.23
Matches are distributed among these distances:
24 5 0.07
25 6 0.08
26 5 0.07
27 6 0.08
28 3 0.04
29 8 0.11
30 7 0.10
31 3 0.04
32 16 0.23
33 9 0.13
34 3 0.04
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (29 bp):
TATTTTATTTTATTTTTATTTTTGTATTT
Found at i:1193581 original size:56 final size:55
Alignment explanation
Indices: 1193487--1193618 Score: 146
Period size: 56 Copynumber: 2.4 Consensus size: 55
1193477 AATAGGTAAG
* *
1193487 TCTATT-TTATTTTATTTTTATTTTTGTATTTTACATTTTTATTTTATTTTTATT
1 TCTATTATTATTTTATTATTATTTTTGTATTATACATTTTTATTTTATTTTTATT
* * *
1193541 TCTATTATTATTATTATTATTATTGTTTTTA-TATATATTTTTCTTTTATTTTTATT
1 TCTATTATTATT-TTATTATTATT-TTTGTATTATACATTTTTATTTTATTTTTATT
1193597 T-TATGTATT-TATTTATTCATTA
1 TCTAT-TATTAT-TTTATT-ATTA
1193619 CTACTATTTA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
54 6 0.09
55 14 0.21
56 42 0.63
57 5 0.07
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (55 bp):
TCTATTATTATTTTATTATTATTTTTGTATTATACATTTTTATTTTATTTTTATT
Found at i:1193636 original size:61 final size:56
Alignment explanation
Indices: 1193521--1193660 Score: 142
Period size: 56 Copynumber: 2.4 Consensus size: 56
1193511 TGTATTTTAC
* * *
1193521 ATTTTTATTTTATTTTTATTTCTATTATTATTATTATTATTATTGTTTTTATATAT
1 ATTTTTATTTTATTTTTATTTCTATTATTATTATTATTACTACTATTTTTATATAT
*
1193577 ATTTTTCTTTTATTTTTATTT-TATGTATTTATTTATTCATTACTACTATTTATTAATATAT
1 ATTTTTATTTTATTTTTATTTCTAT-TA-TTA-TTATT-ATTACTACTATTT-TT-ATATAT
*
1193638 ATATCTTTA--TTATTTTTTTTTCT
1 AT-T-TTTATTTTATTTTTATTTCT
1193661 TTTTTTTTCT
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
55 3 0.04
56 22 0.32
57 3 0.04
58 5 0.07
59 10 0.14
60 2 0.03
61 19 0.28
62 2 0.03
63 3 0.04
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.69
Consensus pattern (56 bp):
ATTTTTATTTTATTTTTATTTCTATTATTATTATTATTACTACTATTTTTATATAT
Found at i:1193717 original size:14 final size:14
Alignment explanation
Indices: 1193677--1193719 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
1193667 TTCTGTTAAT
1193677 ATTTATATGTATATCA
1 ATTTATATGT-TAT-A
*
1193693 AATTATATGTTATA
1 ATTTATATGTTATA
*
1193707 ATTTATCTGTTAT
1 ATTTATATGTTAT
1193720 TTAATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 3 0.12
16 9 0.38
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (14 bp):
ATTTATATGTTATA
Found at i:1193730 original size:22 final size:21
Alignment explanation
Indices: 1193705--1193767 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 21
1193695 TTATATGTTA
1193705 TAATTTATCTGTT-ATTTAATTT
1 TAATTTATCTGTTAATTT--TTT
1193727 TAATTTATCTGTTAATTTTTT
1 TAATTTATCTGTTAATTTTTT
* *
1193748 TGATTTATCTGATTTATTTT
1 TAATTTATCTG-TTAATTTT
1193768 CATTAATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.35
22 20 0.54
23 4 0.11
ACGTcount: A:0.24, C:0.05, G:0.06, T:0.65
Consensus pattern (21 bp):
TAATTTATCTGTTAATTTTTT
Found at i:1193743 original size:12 final size:12
Alignment explanation
Indices: 1193705--1193744 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
1193695 TTATATGTTA
1193705 TAATTTATCTGT
1 TAATTTATCTGT
1193717 T-ATTTAAT-T-T
1 TAATTT-ATCTGT
1193727 TAATTTATCTGT
1 TAATTTATCTGT
1193739 TAATTT
1 TAATTT
1193745 TTTTGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (12 bp):
TAATTTATCTGT
Found at i:1193753 original size:21 final size:20
Alignment explanation
Indices: 1193705--1193758 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
1193695 TTATATGTTA
1193705 TAATTTATCTGTTATTTAATTT
1 TAATTTATCTGTTATTT--TTT
1193727 TAATTTATCTGTTAATTTTTT
1 TAATTTATCTGTT-ATTTTTT
*
1193748 TGATTTATCTG
1 TAATTTATCTG
1193759 ATTTATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 13 0.43
22 13 0.43
23 4 0.13
ACGTcount: A:0.24, C:0.06, G:0.07, T:0.63
Consensus pattern (20 bp):
TAATTTATCTGTTATTTTTT
Found at i:1193767 original size:21 final size:21
Alignment explanation
Indices: 1193705--1193767 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
1193695 TTATATGTTA
*
1193705 TAATTTATCTGTTATTTA-ATTT
1 TAATTTATCTG--ATTTATTTTT
*
1193727 TAATTTATCTG-TTAATTTTTT
1 TAATTTATCTGATTTA-TTTTT
*
1193748 TGATTTATCTGATTTATTTT
1 TAATTTATCTGATTTATTTT
1193768 CATTAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
19 3 0.09
21 17 0.50
22 14 0.41
ACGTcount: A:0.24, C:0.05, G:0.06, T:0.65
Consensus pattern (21 bp):
TAATTTATCTGATTTATTTTT
Found at i:1194706 original size:5 final size:5
Alignment explanation
Indices: 1194675--1194781 Score: 51
Period size: 5 Copynumber: 20.6 Consensus size: 5
1194665 TTAGATTAGG
* * * *
1194675 TTTAT TTAAT ATTCT TTTAT CTTTAT TTTATT TTTATT TTTGT TTTACT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTA-T
* * *
1194724 TTT-C TTTAT TTT-T CTTATTT TTTAT TTTCACT TTTAT TTTGT TTTA-
1 TTTAT TTTAT TTTAT -TT-TAT TTTAT TTT-A-T TTTAT TTTAT TTTAT
1194770 -TTAT TTTAT TTT
1 TTTAT TTTAT TTT
1194782 CTTTAAATAA
Statistics
Matches: 78, Mismatches: 13, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
3 3 0.04
4 4 0.05
5 42 0.54
6 24 0.31
7 5 0.06
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:1194709 original size:17 final size:16
Alignment explanation
Indices: 1194689--1194771 Score: 55
Period size: 17 Copynumber: 5.1 Consensus size: 16
1194679 TTTAATATTC
1194689 TTTTATCTTTATTTTA
1 TTTTATCTTTATTTTA
* *
1194705 TTTTTATTTTTGTTTTA
1 -TTTTATCTTTATTTTA
*
1194722 CTTT-TCTTTATTTT-
1 TTTTATCTTTATTTTA
* *
1194736 TCTTATTTTTTATTTTCA
1 TTTTA-TCTTTATTTT-A
*
1194754 CTTTTAT-TTTGTTTTA
1 -TTTTATCTTTATTTTA
1194770 TT
1 TT
1194772 ATTTTATTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
14 2 0.04
15 10 0.20
16 13 0.25
17 21 0.41
18 1 0.02
19 4 0.08
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTATCTTTATTTTA
Found at i:1194746 original size:10 final size:10
Alignment explanation
Indices: 1194689--1194745 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
1194679 TTTAATATTC
1194689 TTTTATCTTTA
1 TTTT-TCTTTA
*
1194700 TTTTATTTTTA
1 TTTT-TCTTTA
*
1194711 TTTTTGTTTTA
1 TTTTT-CTTTA
*
1194722 CTTTTCTTTA
1 TTTTTCTTTA
1194732 TTTTTC-TTA
1 TTTTTCTTTA
1194741 TTTTT
1 TTTTT
1194746 TATTTTCACT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.20
10 10 0.24
11 23 0.56
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:1194757 original size:32 final size:30
Alignment explanation
Indices: 1194694--1194785 Score: 82
Period size: 32 Copynumber: 3.0 Consensus size: 30
1194684 TATTCTTTTA
* *
1194694 TCTTTATTTTATTTTTATTTTTGTTTTACTTT
1 TCTTTATTTT-TTTAT-TTTTTATTTTACTTT
1194726 TCTTTATTTTTCTTATTTTTTATTTTCACTTT
1 TCTTTATTTTT-TTATTTTTTATTTT-ACTTT
* *
1194758 T-ATT-TTGTTTTATTATTTTATTTT-CTTT
1 TCTTTATTTTTTTATT-TTTTATTTTACTTT
1194786 AAATAAAATC
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
28 4 0.08
29 5 0.09
30 13 0.25
31 12 0.23
32 19 0.36
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.77
Consensus pattern (30 bp):
TCTTTATTTTTTTATTTTTTATTTTACTTT
Found at i:1194779 original size:37 final size:36
Alignment explanation
Indices: 1194697--1194781 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 36
1194687 TCTTTTATCT
**
1194697 TTATTTTA-TTTTTATTTTTGTTTTACTTTTCTTTA
1 TTATTTTATTTTTTATTTTACTTTTACTTTTCTTTA
* *
1194732 TTTTTCTTATTTTTTATTTTCACTTTTA-TTTTGTTTTA
1 TTATT-TTATTTTTTATTTT-ACTTTTACTTTT-CTTTA
1194770 TTATTTTATTTT
1 TTATTTTATTTT
1194782 CTTTAAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
35 4 0.10
36 3 0.07
37 21 0.51
38 13 0.32
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (36 bp):
TTATTTTATTTTTTATTTTACTTTTACTTTTCTTTA
Found at i:1194948 original size:58 final size:57
Alignment explanation
Indices: 1194799--1195238 Score: 417
Period size: 56 Copynumber: 7.7 Consensus size: 57
1194789 TAAAATCCAA
* * *
1194799 AAAAAAATATTTTTGGGGAAAAGTTTAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
** *
1194857 GAAAAAGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAACTTTC
1 -AAAAA-AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
* * * *
1194916 AAAAAAAAGTTTTTGAGGAAAAATTGAAAGTATTAATTTTTCTTAAAAATAAA-TTTT
1 AAAAAAAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
* *** * * ** * *
1194973 TAAAACGGTTTTTGA-GAAAAATATGAAAGTATCAATTTTTCTCGAAATTAAGGTTTC
1 AAAAAAAATTTTTGAGGAAAAGT-TGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
* * *
1195030 TAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-TAAAAATAAATTTTC
1 -AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
** ** *
1195087 AAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
1 AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
* * * * * * * *
1195144 AAAAGATA-TTTTGGGGAAAAGTTGAAAGTTTCAATTTT-CTTCGAGATTAAAATTTC
1 AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAAGTTTC
*
1195200 -TAAAAAATATTTTG-GGAAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAAT-TTTTGAGG-AAAAGTTGAAAGTATCAATTTT
1195239 TCCTACACAA
Statistics
Matches: 318, Mismatches: 52, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
55 13 0.04
56 111 0.35
57 63 0.20
58 73 0.23
59 57 0.18
60 1 0.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.37
Consensus pattern (57 bp):
AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC
Found at i:1195050 original size:114 final size:114
Alignment explanation
Indices: 1194800--1195238 Score: 525
Period size: 114 Copynumber: 3.8 Consensus size: 114
1194790 AAAATCCAAA
* *
1194800 AAAAAATATTTTTGGGGAAAAGTTTAAAGTATCAATTTTCCTTAAAAATAAATTTTCGAAAAAGA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC-AAAAA-A
** ** * *
1194865 TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAACTTTC
64 GGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
* * * * * *
1194916 AAAAAAAAGTTTTTGAGGAAAAATTGAAAGTATTAATTTTTCTTAAAAATAAATTTT-TAAAACG
1 AAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAG
* * *
1194980 GTTTTTGA-GAAAAATATGAAAGTATCAATTTTTCTCGAAATTAAGGTTTC
65 GTTTTTGAGGAAAAGT-TGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
*
1195030 TAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCCTAAAAATAAATTTTCAAAAAAG
1 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAG
1195094 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
65 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
* * * * * *
1195144 AAAAGATA-TTTTGGGGAAAAGTTGAAAGTTTCAA-TTTTCTTCGAGATTAAAATTTCTAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAATTTTC-AAAAAA
1195207 --TATTTTG-GGAAAAAGTTGAAAGTATCAATTTT
64 GGT-TTTTGAGG-AAAAGTTGAAAGTATCAATTTT
1195239 TCCTACACAA
Statistics
Matches: 280, Mismatches: 34, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
112 34 0.12
113 69 0.25
114 110 0.39
115 17 0.06
116 7 0.03
117 43 0.15
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.37
Consensus pattern (114 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGG
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
Found at i:1196540 original size:25 final size:26
Alignment explanation
Indices: 1196491--1196540 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
1196481 ATTCATTAAT
* * *
1196491 TTTTAAATGTAATTTTTTATTTATTA
1 TTTTAAATATAATTTTTAATATATTA
1196517 TTTT-AATATAATTTTTAATATATT
1 TTTTAAATATAATTTTTAATATATT
1196541 TAAATAGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTTAAATATAATTTTTAATATATTA
Found at i:1196541 original size:11 final size:12
Alignment explanation
Indices: 1196487--1196538 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
1196477 TTCGATTCAT
*
1196487 TAATTTTTAAATG
1 TAATTTTT-AATA
* *
1196500 TAATTTTTTATT
1 TAATTTTTAATA
*
1196512 TATTATTTTAATA
1 TAAT-TTTTAATA
1196525 TAATTTTTAATA
1 TAATTTTTAATA
1196537 TA
1 TA
1196539 TTTAAATAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 15 0.47
13 17 0.53
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (12 bp):
TAATTTTTAATA
Done.