Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold51
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: 3712191
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 131352 characters in sequence are not A, C, G, or T
File 2 of 23
Found at i:146084 original size:165 final size:161
Alignment explanation
Indices: 145636--146082 Score: 496
Period size: 165 Copynumber: 2.7 Consensus size: 161
145626 CATCTTCGTA
* * * *
145636 AATTTTTTTCAAGA-GGATTTTTTTTG--TTTAATTTTTAAATTTTATCAAATATCATTATTTAA
1 AATTTTTTT-AGGAGGGATTTTTTTTGTTTTTAATTTTTAAAATTCATCAAATATTATTATTT-A
* * *
145698 TTT-ATAGTAAATCAGTTCTAAAAAATTCATTCATTGTCATAATTTTTTTATTTTTTCCTTGAAA
64 TTTCATA-TAAATCAGTTCTAAAAAATTCATTCATTTTCA-AA--GTTTTATTTTTTCCTTAAAA
*** *
145762 CTCTTTTTTTTCCAAAATATGGAGTTTTCTACTCTGT
125 CTCTTTTTTTTCCAAAATACAAAGTTTTCTACTCGGT
* * * *
145799 AATTTTTTTCGGAGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAA
1 AATTTTTTTAGGAGGGATTTTT-TTTGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAT
*
145864 TTCATAAAAATCAGTTCTAAAAAATTCATTCATTTTCTTAAATGTTTTATTTTTTCCTTAAAACT
65 TTCATATAAATCAGTTCTAAAAAATTCATTCATTTTC--AAA-GTTTTATTTTTTCCTTAAAACT
* *
145929 CTTTTTTTTTCGAAATACAAAGTTTTCTACTCGGT
127 CTTTTTTTTCCAAAATACAAAGTTTTCTACTCGGT
145964 AA-TTTTTTAGG-GGGATTTTTTTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAT
1 AATTTTTTTAGGAGGGATTTTTTTT-GTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAT
* * *
146027 TTCATATTAAAGT-ATTTTTCAAAAATTCACTT-ATTTTCAAGAGTTTTGAATTTTTT
65 TTCATA-TAAA-TCAGTTCTAAAAAATTCA-TTCATTTTCAA-AGTTTT--ATTTTTT
146083 TCTTTTAAGT
Statistics
Matches: 244, Mismatches: 26, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
162 11 0.05
163 69 0.28
164 40 0.16
165 87 0.36
166 36 0.15
167 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (161 bp):
AATTTTTTTAGGAGGGATTTTTTTTGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATT
TCATATAAATCAGTTCTAAAAAATTCATTCATTTTCAAAGTTTTATTTTTTCCTTAAAACTCTTT
TTTTTCCAAAATACAAAGTTTTCTACTCGGT
Found at i:146401 original size:14 final size:15
Alignment explanation
Indices: 146382--146411 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
146372 AAATTTTATC
146382 TTAATTTTTA-AATT
1 TTAATTTTTACAATT
146396 TTAATTTTTACAATT
1 TTAATTTTTACAATT
146411 T
1 T
146412 AATCCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TTAATTTTTACAATT
Found at i:147075 original size:14 final size:14
Alignment explanation
Indices: 147056--147091 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
147046 ACATAAATGT
* *
147056 TTTTCAAGCATTTG
1 TTTTCAAACACTTG
147070 TTTTCAAACACTTG
1 TTTTCAAACACTTG
147084 TTTTCAAA
1 TTTTCAAA
147092 TTAAAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (14 bp):
TTTTCAAACACTTG
Found at i:147235 original size:13 final size:13
Alignment explanation
Indices: 147217--147243 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
147207 ACATATTGCT
147217 TTGTATCGATACA
1 TTGTATCGATACA
147230 TTGTATCGATACA
1 TTGTATCGATACA
147243 T
1 T
147244 GAAGAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:147254 original size:20 final size:20
Alignment explanation
Indices: 147229--147266 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
147219 GTATCGATAC
*
147229 ATTGTATCGATACATGAAGA
1 ATTGTATCAATACATGAAGA
147249 ATTGTATCAATACATGAA
1 ATTGTATCAATACATGAA
147267 ACTAGTAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (20 bp):
ATTGTATCAATACATGAAGA
Found at i:152547 original size:15 final size:15
Alignment explanation
Indices: 152527--152556 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
152517 CAACATTTCC
*
152527 TCTATTAAAACTTTT
1 TCTATTAAAAATTTT
152542 TCTATTAAAAATTTT
1 TCTATTAAAAATTTT
152557 GAAAGCCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (15 bp):
TCTATTAAAAATTTT
Found at i:155677 original size:15 final size:15
Alignment explanation
Indices: 155659--155689 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
155649 CGAGTCAACT
155659 TCATCATTATCATCA
1 TCATCATTATCATCA
*
155674 TCATCATTATCTTCA
1 TCATCATTATCATCA
155689 T
1 T
155690 TATCTTTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:158377 original size:22 final size:22
Alignment explanation
Indices: 158334--158374 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
158324 GAGTTATAAA
*
158334 CAAATGTTTTTGAACTATAATT
1 CAAATGTTTTTGAACTAAAATT
*
158356 CAAATGTTTTT-AAGTAAAA
1 CAAATGTTTTTGAACTAAAA
158375 ATTACTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (22 bp):
CAAATGTTTTTGAACTAAAATT
Found at i:158533 original size:19 final size:19
Alignment explanation
Indices: 158505--158561 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
158495 TTGTATCAAT
* * *
158505 ACATTATATCAATACATGT
1 ACATTGTATCGATACATGG
* *
158524 TCATTGTATCGATATATGG
1 ACATTGTATCGATACATGG
158543 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
158562 AAATTGACAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:158691 original size:19 final size:20
Alignment explanation
Indices: 158667--158720 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
158657 TGCTTTGTAT
* **
158667 TTGTATCAATACATGTTC-A
1 TTGTATCGATACATGGACAA
*
158686 TTGTATCGATATATGGACAA
1 TTGTATCGATACATGGACAA
158706 TTGTATCGATACATG
1 TTGTATCGATACATG
158721 AAATTGACAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:158774 original size:20 final size:20
Alignment explanation
Indices: 158749--158802 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
158739 CTACCACTAT
*
158749 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
* *
158769 TTGTATCGATGCACGATGAA
1 TTGTATCGATACATGATGAA
158789 TTGTATCGATACAT
1 TTGTATCGATACAT
158803 TGCTTCTAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:164079 original size:13 final size:13
Alignment explanation
Indices: 164061--164087 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
164051 ACAATATTCC
164061 TTGTATCGATACA
1 TTGTATCGATACA
164074 TTGTATCGATACA
1 TTGTATCGATACA
164087 T
1 T
164088 GGGCTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:166707 original size:33 final size:33
Alignment explanation
Indices: 166647--166714 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
166637 CTACCACTAT
* *
166647 TTGTATCGATACATGGTACATTATATCGATTCA
1 TTGTATCGATACATGATACATTATATCGATACA
*
166680 TTGTATCGATACATGATGA-ATTGTATCGATACA
1 TTGTATCGATACATGAT-ACATTATATCGATACA
166713 TT
1 TT
166715 ACTTATAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (33 bp):
TTGTATCGATACATGATACATTATATCGATACA
Found at i:167498 original size:11 final size:11
Alignment explanation
Indices: 167469--167501 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
167459 TATCACATGA
*
167469 ATTTTAGACAT
1 ATTTTAGGCAT
167480 ATTTTAGGCAT
1 ATTTTAGGCAT
167491 ATTTTAGGCAT
1 ATTTTAGGCAT
167502 TTTAACATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (11 bp):
ATTTTAGGCAT
Found at i:168883 original size:153 final size:152
Alignment explanation
Indices: 168565--168952 Score: 383
Period size: 153 Copynumber: 2.5 Consensus size: 152
168555 CATTCTCTCA
* * ** * * *
168565 CATCTAATCCTTTTAAGTCCTTTAGGGGTATCGACCACTTTCACATCAAAGGTATCTTCTAAGGG
1 CATCTAAGCCTTTTAAGTCTTTTAGGGGTATCGAGTACTTTCACGTCGAAGGTATCCTCTAAGGG
* *
168630 CATTTTCGTAATTTTTTTAGAAATAAGTCCTTAGTCGTCACCGAGTCCGCTTTTGTACCAAAGGT
66 CATTTTCGTAA-TTTTTTAGAAATAAGTCCTTAGTCGTCACCGAGTCCACTTTTATACCAAAGGT
* *
168695 GGACATTTAGGATAGTTTCATCC
130 AGACATTTAGGATAGGTTCATCC
*
168718 CATCTAATCCTTTTAAGTCTTTTAGGGGTATCGAGTACTTTCACGTCGAAGGTATCCTCTAAGGG
1 CATCTAAGCCTTTTAAGTCTTTTAGGGGTATCGAGTACTTTCACGTCGAAGGTATCCTCTAAGGG
* * * * * * * ** *
168783 TATTTTAGTAATTTTTTAGAACTGAA-TCC-TAGGTTGTCATCGGGTCTACTTTTATGTCGAAGG
66 CATTTTCGTAATTTTTTAGAAAT-AAGTCCTTA-GTCGTCACCGAGTCCACTTTTATACCAAAGG
**
168846 TAGATGTTTA-GATAGGTTCAT-C
129 TAGACATTTAGGATAGGTTCATCC
* * * * *
168868 TATTTTAAAAGCCTTTTTAAGTCTTTTAGGGGTATC-AGGTGC-TTCTACGTTGAAGGTATCCTT
1 CA-TCT--AAGCC-TTTTAAGTCTTTTAGGGGTATCGA-GTACTTTC-ACGTCGAAGGTATCCTC
*
168931 TAAAGGCATTTTCGTAATTTTT
60 TAAGGGCATTTTCGTAATTTTT
168953 CTTGAACTTA
Statistics
Matches: 196, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
150 2 0.01
151 14 0.07
152 43 0.22
153 78 0.40
154 59 0.30
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.39
Consensus pattern (152 bp):
CATCTAAGCCTTTTAAGTCTTTTAGGGGTATCGAGTACTTTCACGTCGAAGGTATCCTCTAAGGG
CATTTTCGTAATTTTTTAGAAATAAGTCCTTAGTCGTCACCGAGTCCACTTTTATACCAAAGGTA
GACATTTAGGATAGGTTCATCC
Found at i:169426 original size:26 final size:26
Alignment explanation
Indices: 169377--169427 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
169367 TTTTAAAATG
*
169377 AAAATAAAAAATTTTTATAATTTTCA
1 AAAATAAAAAATTTTTACAATTTTCA
* *
169403 AAAATAAAAACTTTTTACATTTTTC
1 AAAATAAAAAATTTTTACAATTTTC
169428 TAATGCTCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (26 bp):
AAAATAAAAAATTTTTACAATTTTCA
Found at i:176724 original size:21 final size:21
Alignment explanation
Indices: 176709--176762 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
176699 ATATTCAATC
*
176709 TCAAATTTCATTTATTCTTTT
1 TCAAATTTCATCTATTCTTTT
176730 TCAAATTTCATCTATTCTTTT
1 TCAAATTTCATCTATTCTTTT
176751 TCAAATTTCATC
1 TCAAATTTCATC
176763 AAATTTACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.56
Consensus pattern (21 bp):
TCAAATTTCATCTATTCTTTT
Found at i:179143 original size:23 final size:23
Alignment explanation
Indices: 179115--179239 Score: 80
Period size: 23 Copynumber: 5.3 Consensus size: 23
179105 AATATCAAAG
*
179115 ATGTTTTTCAAGCATTAGATCAA
1 ATGTTTTTCAAGCATTAGATCAT
*
179138 ATG-TTTTCAA--ATTAAATCAT
1 ATGTTTTTCAAGCATTAGATCAT
* *
179158 ATG-TTTTCAAATCATATGTTTGTATCGAT
1 ATGTTTTTC-AAGC--A--TTAG-ATC-AT
* *
179187 ATGTTTTTCAAGCATAAGTAT-AA
1 ATGTTTTTCAAGCATTAG-ATCAT
*
179210 ATGTTTTTCAAGCATTAAATCAT
1 ATGTTTTTCAAGCATTAGATCAT
179233 ATGTTTT
1 ATGTTTT
179240 CAAATTAAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
20 16 0.20
21 2 0.03
22 9 0.11
23 28 0.35
25 6 0.08
27 3 0.04
28 3 0.04
29 8 0.10
30 5 0.06
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (23 bp):
ATGTTTTTCAAGCATTAGATCAT
Found at i:179156 original size:20 final size:20
Alignment explanation
Indices: 179128--179169 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
179118 TTTTTCAAGC
*
179128 ATTAGATCAAATGTTTTCAA
1 ATTAAATCAAATGTTTTCAA
*
179148 ATTAAATCATATGTTTTCAA
1 ATTAAATCAAATGTTTTCAA
179168 AT
1 AT
179170 CATATGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (20 bp):
ATTAAATCAAATGTTTTCAA
Found at i:179932 original size:23 final size:23
Alignment explanation
Indices: 179905--179951 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
179895 TTAGTATTCA
* *
179905 AATTTGTGTTATAATCTCTT-AAG
1 AATTTGGGGTATAAT-TCTTGAAG
179928 AATTTGGGGTATAATTCTTGAAG
1 AATTTGGGGTATAATTCTTGAAG
179951 A
1 A
179952 GATTAAGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (23 bp):
AATTTGGGGTATAATTCTTGAAG
Found at i:183129 original size:13 final size:13
Alignment explanation
Indices: 183111--183161 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
183101 TTGAATTAAC
183111 AATCATTTAACAA
1 AATCATTTAACAA
183124 AATCATTTAACAA
1 AATCATTTAACAA
** *
183137 GTGTCATATGAACAA
1 -AATCAT-TTAACAA
183152 AATCATTTAA
1 AATCATTTAA
183162 TCATCAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 16 0.53
14 8 0.27
15 6 0.20
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (13 bp):
AATCATTTAACAA
Found at i:186731 original size:16 final size:17
Alignment explanation
Indices: 186710--186742 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
186700 TTAGGAACAT
186710 GAAAAAAG-AAAAAAAA
1 GAAAAAAGCAAAAAAAA
186726 GAAAAAAGCAAAAAAAA
1 GAAAAAAGCAAAAAAAA
186743 AATGGAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (17 bp):
GAAAAAAGCAAAAAAAA
Found at i:187873 original size:18 final size:18
Alignment explanation
Indices: 187834--187873 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
187824 CTGCATTTCC
*
187834 ATTTTAGATGACATTTGA
1 ATTTTAGATGACATTGGA
*
187852 ATTTTAGATGACATTGGT
1 ATTTTAGATGACATTGGA
187870 ATTT
1 ATTT
187874 GTGTCATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.47
Consensus pattern (18 bp):
ATTTTAGATGACATTGGA
Found at i:193027 original size:32 final size:31
Alignment explanation
Indices: 192943--193092 Score: 167
Period size: 32 Copynumber: 4.7 Consensus size: 31
192933 CTAACTTATA
*
192943 TGGGCTTTAGAAGGGTCGCCATCAACTTGTG
1 TGGGCTTTAGAAGGGTTGCCATCAACTTGTG
* * *
192974 TGGGCTTTTGAAGGGGATTGCCATCGATTTGTG
1 TGGGCTTTAGAA-GGG-TTGCCATCAACTTGTG
* *
193007 TGAGCTTTGAGAAGGGTTGCCACCAACTTGTG
1 TGGGCTTT-AGAAGGGTTGCCATCAACTTGTG
* *
193039 TGGGCCTTCAGAAAGGTTGCCATTC-ACTTGTG
1 TGGG-CTTTAGAAGGGTTGCCA-TCAACTTGTG
193071 TGGGCTTTAGAAAGGGTTGCCA
1 TGGGCTTTAG-AAGGGTTGCCA
193093 CTGACTTGTG
Statistics
Matches: 98, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
31 16 0.16
32 52 0.53
33 27 0.28
34 3 0.03
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (31 bp):
TGGGCTTTAGAAGGGTTGCCATCAACTTGTG
Found at i:193100 original size:32 final size:32
Alignment explanation
Indices: 192913--193450 Score: 279
Period size: 28 Copynumber: 18.0 Consensus size: 32
192903 CTAACAACAT
* * * * *
192913 TGGGC-TTAGAAA-AGTTGCCGCTAACTTATA
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* *
192943 TGGGCTTTAG-AAGGGTCGCCA-TCAACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACT-GACTTGTG
* * *
192974 TGGGCTTTTGAAGGGGATTGCCA-TCGATTTGTG
1 TGGGCTTTAGAAAGGG-TTGCCACT-GACTTGTG
* **
193007 TGAGCTTT-GAGAAGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGA-AAGGGTTGCCACTGACTTGTG
* * *
193039 TGGGCCTTCAGAAA-GGTTGCCATTCACTTGTG
1 TGGG-CTTTAGAAAGGGTTGCCACTGACTTGTG
193071 TGGGCTTTAGAAAGGGTTGCCACTGAC-T-TG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* *
193101 TGGGCTTTA-AAA-GGATGCCACTAAC-T-TG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* * *
193129 TGGG-TTTTGAAA-GGCTGCCACT-AATT-TG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* * *
193157 TGGGCTTT-G-AA-TG-TGTCACT-AATT-TG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
*
193183 TAGGCTTTA-AAAGGG-TGCCACTGAC-T-T-
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* *
193210 TAGGCTTTA-AAAGGG-TGCCACT-AATT-TG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* *
193238 TGAGCTTTA-AAAAGG-TGCCACTGAC-T-TG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* *
193266 TGGGCTTT-GAAA-GGATGCCACTTAC-T-TG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* *
193294 TAGGCTTT-GAAAGGG-TGCCACTGACTCGTG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
* * * **
193324 -GGG-TTTCAAAAAAACGGATGCCACCAACTTGTG
1 TGGGCTTT---AGAAAGGGTTGCCACTGACTTGTG
* *
193357 TGGGCATTA-AAGGAGGTTGCCACTGACTTGTG
1 TGGGCTTTAGAAAG-GGTTGCCACTGACTTGTG
* *
193389 TGGACTTTAGAAAGGGTTGCTACTGACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
*
193421 TGGGATTTA-AAAGGG-TGCCACTGACTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
193451 GGCTTTGGAA
Statistics
Matches: 411, Mismatches: 63, Indels: 68
0.76 0.12 0.13
Matches are distributed among these distances:
26 20 0.05
27 35 0.09
28 114 0.28
29 12 0.03
30 35 0.09
31 41 0.10
32 103 0.25
33 44 0.11
34 5 0.01
35 2 0.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (32 bp):
TGGGCTTTAGAAAGGGTTGCCACTGACTTGTG
Found at i:193120 original size:28 final size:28
Alignment explanation
Indices: 193069--193524 Score: 337
Period size: 28 Copynumber: 15.8 Consensus size: 28
193059 CATTCACTTG
193069 TGTGGGCTTTAGAAAGGGTTGCCACTGACT
1 TGTGGGCTTTA-AAAGGG-TGCCACTGACT
* *
193099 TGTGGGCTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* * * * *
193127 TGTGGGTTTTGAAAGGCTGCCACTAATT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* * * * *
193155 TGTGGGCTTT-GAA-TGTGTCACTAATT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
*
193181 TGTAGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* * *
193209 T-TAGGCTTTAAAAGGGTGCCACTAATT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* *
193236 TGTGAGCTTTAAAAAGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* * *
193264 TGTGGGCTTTGAAAGGATGCCACTTACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* *
193292 TGTAGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* * * **
193320 CGTGGGGTTTCAAAAAAACGGATGCCACCAACTT
1 TGTGGGCTTT----AAAA-GGGTGCCACTGAC-T
* *
193354 GTGTGGGCATTAAAGGAGGTTGCCACTGACT
1 -TGTGGGCTTTAAA--AGGGTGCCACTGACT
*
193385 TGTGTGGACTTTAGAAAGGGTTGCTACTGACTT
1 TGTG-GG-CTTTA-AAAGGG-TGCCACTGAC-T
*
193418 GTGTGGGATTTAAAAGGGTGCCACTGACT
1 -TGTGGGCTTTAAAAGGGTGCCACTGACT
** ** * *
193447 TGTGGGCTTTGGAAGGAAGCCACTAATT
1 TGTGGGCTTTAAAAGGGTGCCACTGACT
* *
193475 TGTAGGCTTTAAAAGGGTGCCAC-GCAGT
1 TGTGGGCTTTAAAAGGGTGCCACTG-ACT
* *
193503 TGTGGAC-TTAAAAAGGTGCCAC
1 TGTGGGCTTTAAAAGGGTGCCAC
193525 GAAGTTATGG
Statistics
Matches: 340, Mismatches: 67, Indels: 41
0.76 0.15 0.09
Matches are distributed among these distances:
26 19 0.06
27 43 0.13
28 175 0.51
29 6 0.02
30 24 0.07
31 15 0.04
32 30 0.09
33 16 0.05
34 5 0.01
35 7 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTAAAAGGGTGCCACTGACT
Found at i:193506 original size:56 final size:56
Alignment explanation
Indices: 193073--193524 Score: 385
Period size: 56 Copynumber: 7.8 Consensus size: 56
193063 CACTTGTGTG
* *
193073 GGCTTTAGAAAGGGTTGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACTTGTG
1 GGCTTTA-AAAGGG-TGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAATTTGTA
* * * * * * * *
193131 GGTTTTGAAAGGCTGCCACTAATTTGTGGGCTTT-GAATG-TGTCACTAATTTGTA
1 GGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAATTTGTA
* *
193185 GGCTTTAAAAGGGTGCCACTGACTT-TAGGCTTTAAAAGGGTGCCACTAATTTGT-
1 GGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAATTTGTA
* * * *
193239 GAGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTTACTTGTA
1 G-GCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAATTTGTA
* * * * *
193296 GGCTTTGAAAGGGTGCCACTGACTCGTGGGGTTTCAAAAAAACGGATGCCACCAACTTGTGTG
1 GGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTT----AAAA-GGATGCCACTAA-TT-TGTA
* * * * * *
193359 GGCATTAAAGGAGGTTGCCACTGACTTGTGTGGACTTTAGAAAGGGTTGCTACTGACTTGTGTG
1 GGCTTTAAA--AGGGTGCCACTGACTTGTG-GG-CTTTA-AAA-GGATGCCACT-AATT-TGTA
* ** *
193423 GGATTTAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGAAGCCACTAATTTGTA
1 GGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAATTTGTA
* * *
193479 GGCTTTAAAAGGGTGCCAC-GCAGTTGTGGACTTAAAAAGG-TGCCAC
1 GGCTTTAAAAGGGTGCCACTG-ACTTGTGGGCTTTAAAAGGATGCCAC
193525 GAAGTTATGG
Statistics
Matches: 314, Mismatches: 61, Indels: 41
0.75 0.15 0.10
Matches are distributed among these distances:
53 7 0.02
54 36 0.11
55 45 0.14
56 107 0.34
57 9 0.03
58 12 0.04
59 2 0.01
60 7 0.02
61 12 0.04
62 19 0.06
63 11 0.04
64 24 0.08
65 18 0.06
66 2 0.01
67 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (56 bp):
GGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAATTTGTA
Found at i:193521 original size:27 final size:26
Alignment explanation
Indices: 193483--193574 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 26
193473 TTTGTAGGCT
*
193483 TTAAAAGGGTGCCACGCAGTTGTGGAC
1 TTAAAAAGGTGCCACG-AGTTGTGGAC
*
193510 TTAAAAAGGTGCCACGAAGTTATGGAC
1 TTAAAAAGGTGCCACG-AGTTGTGGAC
* * *
193537 TTAAAAAGATACTACAGAGTTGTGGAC
1 TTAAAAAGGTGCCAC-GAGTTGTGGAC
193564 TTAAAAGAGGT
1 TTAAAA-AGGT
193575 TACATTACTA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 51 0.93
28 4 0.07
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (26 bp):
TTAAAAAGGTGCCACGAGTTGTGGAC
Found at i:194604 original size:14 final size:14
Alignment explanation
Indices: 194585--194614 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
194575 TAAAGTGGAA
194585 TTTTTCTCTTCTTT
1 TTTTTCTCTTCTTT
*
194599 TTTTTCTTTTCTTT
1 TTTTTCTCTTCTTT
194613 TT
1 TT
194615 ATGATCAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTCTTCTTT
Found at i:194939 original size:24 final size:24
Alignment explanation
Indices: 194912--194993 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
194902 TGTTGTTCCC
194912 TTTTTTATTTTGCTTTTGCACTTT
1 TTTTTTATTTTGCTTTTGCACTTT
* *
194936 TTTTTTGTTTTTCTTTT-CA-TTT
1 TTTTTTATTTTGCTTTTGCACTTT
**
194958 TTTTGTGCTTTTGCTTTTG-ACTTT
1 TTTT-TTATTTTGCTTTTGCACTTT
* *
194982 TTTGTAATTTTG
1 TTTTTTATTTTG
194994 AAAGGAACAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
22 7 0.15
23 19 0.40
24 21 0.45
ACGTcount: A:0.07, C:0.10, G:0.11, T:0.72
Consensus pattern (24 bp):
TTTTTTATTTTGCTTTTGCACTTT
Found at i:195496 original size:31 final size:31
Alignment explanation
Indices: 195459--195521 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
195449 AGGGGAAGAC
* *
195459 AAAAATGTGTATGGACAGAAAAAGTTAAACA
1 AAAAATGTGTATGGACAAAAAAAATTAAACA
*
195490 AAAAATGTGTATGGACAAAAAAAATTGAACA
1 AAAAATGTGTATGGACAAAAAAAATTAAACA
195521 A
1 A
195522 GGGTGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.57, C:0.06, G:0.17, T:0.19
Consensus pattern (31 bp):
AAAAATGTGTATGGACAAAAAAAATTAAACA
Found at i:203093 original size:48 final size:48
Alignment explanation
Indices: 203016--203266 Score: 186
Period size: 48 Copynumber: 5.2 Consensus size: 48
203006 TTGATTGTAT
* * * * *
203016 CTGGTCAAACTCTTTTCAT-CCTTCGTTTGACTATTTTAATGTTAGGGC
1 CTGGTCAAACTATTTTTATGCC-TCATTTGACTATATTAGTGTTAGGGC
* * * **
203064 CTAGTCAAA-TATTTTTCTTTCCTCATTTGACTATATTAGTGTTAGCAC
1 CTGGTCAAACTATTTTT-ATGCCTCATTTGACTATATTAGTGTTAGGGC
* *
203112 CTGGTCAAACTCTTTTTATGCCTCATTTGACTATATTGGTGTTAGGGC
1 CTGGTCAAACTATTTTTATGCCTCATTTGACTATATTAGTGTTAGGGC
** * * * * * * *
203160 CTGGTCAAACTCAAATCT-TCCCTCGTTTAACTGTATTGGTGTTAAGGC
1 CTGGTCAAACT-ATTTTTATGCCTCATTTGACTATATTAGTGTTAGGGC
* * * * * *
203208 CTGATCAAACT-TTTTTCATCCCTCGTTTGACTGTATTAGTGTTAAGAC
1 CTGGTCAAACTATTTTT-ATGCCTCATTTGACTATATTAGTGTTAGGGC
*
203256 TTGGTCAAACT
1 CTGGTCAAACT
203267 CTCCTCTTTC
Statistics
Matches: 163, Mismatches: 34, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
46 2 0.01
47 5 0.03
48 146 0.90
49 10 0.06
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.41
Consensus pattern (48 bp):
CTGGTCAAACTATTTTTATGCCTCATTTGACTATATTAGTGTTAGGGC
Found at i:203202 original size:96 final size:96
Alignment explanation
Indices: 203016--203267 Score: 244
Period size: 96 Copynumber: 2.6 Consensus size: 96
203006 TTGATTGTAT
* * * * **
203016 CTGGTCAAACTCTTTTCATCCTTCGTTTGACTATTTTAATGTTAGGGCCTAGTCAAA-T-ATTTT
1 CTGGTCAAACTCTTTTTATCC-TCGTTTGACTATATTAGTGTTAGGGCCTGGTCAAACTCA-TAA
* *
203079 TCTTTCCTCATTTGACTATATTAGTGTT-AGCAC
64 TCTTCCCTCATTTAACTATATTAGTGTTAAG-AC
* *
203112 CTGGTCAAACTCTTTTTATGCCTCATTTGACTATATTGGTGTTAGGGCCTGGTCAAACTCA-AAT
1 CTGGTCAAACTCTTTTTAT-CCTCGTTTGACTATATTAGTGTTAGGGCCTGGTCAAACTCATAAT
* * * *
203176 CTTCCCTCGTTTAACTGTATTGGTGTTAAGGC
65 CTTCCCTCATTTAACTATATTAGTGTTAAGAC
* * * * *
203208 CTGATCAAACT-TTTTTCATCCCTCGTTTGACTGTATTAGTGTTAAGACTTGGTCAAACTC
1 CTGGTCAAACTCTTTTT-AT-CCTCGTTTGACTATATTAGTGTTAGGGCCTGGTCAAACTC
203268 TCCTCTTTCC
Statistics
Matches: 129, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
95 5 0.04
96 118 0.91
97 5 0.04
98 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (96 bp):
CTGGTCAAACTCTTTTTATCCTCGTTTGACTATATTAGTGTTAGGGCCTGGTCAAACTCATAATC
TTCCCTCATTTAACTATATTAGTGTTAAGAC
Found at i:203372 original size:87 final size:87
Alignment explanation
Indices: 203275--203441 Score: 223
Period size: 87 Copynumber: 1.9 Consensus size: 87
203265 CTCTCCTCTT
* * * *
203275 TCCTGTCTAACATATGGTTACCA-CTCTGGTCAGATTTTTTTCATTCCAATTTGA-TAATGGTTA
1 TCCTATCTAACATATGGTTACCACCT-TAGTCAGATTCTTTTCATTCCAATTTAACT-ATGGTTA
203338 CCACCCT-GATCAAATCCACCTTTC
64 CCACCCTAG-TCAAATCCACCTTTC
**
203362 TCCTATCTAACATATGGTTACCACCTTAGTCAGATTCTTTTCATTCTGATTTAACGTATGGTTAC
1 TCCTATCTAACATATGGTTACCACCTTAGTCAGATTCTTTTCATTCCAATTTAAC-TATGGTTAC
203427 CACCCTAGTCAAATC
65 CACCCTAGTCAAATC
203442 TGCCTATTTC
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
87 45 0.64
88 23 0.33
89 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.38
Consensus pattern (87 bp):
TCCTATCTAACATATGGTTACCACCTTAGTCAGATTCTTTTCATTCCAATTTAACTATGGTTACC
ACCCTAGTCAAATCCACCTTTC
Found at i:203422 original size:44 final size:45
Alignment explanation
Indices: 203366--203648 Score: 189
Period size: 44 Copynumber: 6.5 Consensus size: 45
203356 CCTTTCTCCT
*
203366 ATCTAACATATGGTTACCACCTTAGTCAGATTCT-TTTCATTCTG
1 ATCTAACGTATGGTTACCACCTTAGTCAGATTCTATTTCATTCTG
* * *
203410 ATTTAACGTATGGTTACCACCCTAGTCAAATCTGCCTATTTC--T-TG
1 ATCTAACGTATGGTTACCACCTTAGTCAGAT-T--CTATTTCATTCTG
* * * ** *
203455 -TCTAGCGTATGGTTACC-CCTTGGTCA-AATCTACCTCCTTCCT-
1 ATCTAACGTATGGTTACCACCTTAGTCAGATTCTATTTCATT-CTG
* * *
203497 ATCTGACGTATGGTTACCACCCTAGTTAGATTCT-TTTCATTCTG
1 ATCTAACGTATGGTTACCACCTTAGTCAGATTCTATTTCATTCTG
* * * * ***
203541 ATTTAACATATGATTACCACCTT-GATCA-AGTCTGCCTCATTCCTG
1 ATCTAACGTATGGTTACCACCTTAG-TCAGATTCTATTTCATT-CTG
* *
203586 -TCTGACGTATGGTTACCACCTTAGTCAGATTCT-TTTCATTTTG
1 ATCTAACGTATGGTTACCACCTTAGTCAGATTCTATTTCATTCTG
* * *
203629 ATTTGACATAT-GTTACCACC
1 ATCTAACGTATGGTTACCACC
203649 CTGATCAAAT
Statistics
Matches: 182, Mismatches: 39, Indels: 37
0.71 0.15 0.14
Matches are distributed among these distances:
39 5 0.03
41 2 0.01
42 1 0.01
43 41 0.23
44 111 0.61
45 15 0.08
46 1 0.01
47 2 0.01
48 4 0.02
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (45 bp):
ATCTAACGTATGGTTACCACCTTAGTCAGATTCTATTTCATTCTG
Found at i:203507 original size:43 final size:43
Alignment explanation
Indices: 203415--203522 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
203405 TTCTGATTTA
* * * *
203415 ACGTATGGTTACCACCCTAGTCAAATCTGCCTATTTCTTGTCT
1 ACGTATGGTTACCACCCTAGTCAAATCTACCTACTTCCTATCT
* * *
203458 AGCGTATGGTTACC-CCTTGGTCAAATCTACCTCCTTCCTATCT
1 A-CGTATGGTTACCACCCTAGTCAAATCTACCTACTTCCTATCT
203501 GACGTATGGTTACCACCCTAGT
1 -ACGTATGGTTACCACCCTAGT
203523 TAGATTCTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
43 35 0.66
44 18 0.34
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (43 bp):
ACGTATGGTTACCACCCTAGTCAAATCTACCTACTTCCTATCT
Found at i:203528 original size:131 final size:132
Alignment explanation
Indices: 203331--203612 Score: 367
Period size: 131 Copynumber: 2.1 Consensus size: 132
203321 CAATTTGATA
* * * *
203331 ATGGTTACCACCCTGATCAAATCCACCTTTCTCCTATCTAACATATGGTTACCACCTTAGTCAGA
1 ATGGTTACCACCTTGGTCAAATCCACCTCTCTCCTATCTAACATATGGTTACCACCCTAGTCAGA
* * *
203396 TTCTTTTCATTCTGATTTAACGTATGGTTACCACCCTAG-TCAAATCTGCCT-ATTTCTTGTCT-
66 TTCTTTTCATTCTGATTTAACATATGATTACCA-CCTAGATCAAATCTGCCTCA-TTCCTGTCTG
203458 AGCGT
129 A-CGT
* * * *
203463 ATGGTTACC-CCTTGGTCAAATCTACCTC-CTTCCTATCTGACGTATGGTTACCACCCTAGTTAG
1 ATGGTTACCACCTTGGTCAAATCCACCTCTC-TCCTATCTAACATATGGTTACCACCCTAGTCAG
* *
203526 ATTCTTTTCATTCTGATTTAACATATGATTACCACCTTGATCAAGTCTGCCTCATTCCTGTCTGA
65 ATTCTTTTCATTCTGATTTAACATATGATTACCACCTAGATCAAATCTGCCTCATTCCTGTCTGA
203591 CGT
130 CGT
*
203594 ATGGTTACCACCTTAGTCA
1 ATGGTTACCACCTTGGTCA
203613 GATTCTTTTC
Statistics
Matches: 131, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
130 5 0.04
131 107 0.82
132 19 0.15
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (132 bp):
ATGGTTACCACCTTGGTCAAATCCACCTCTCTCCTATCTAACATATGGTTACCACCCTAGTCAGA
TTCTTTTCATTCTGATTTAACATATGATTACCACCTAGATCAAATCTGCCTCATTCCTGTCTGAC
GT
Found at i:203596 original size:175 final size:173
Alignment explanation
Indices: 203413--203787 Score: 391
Period size: 175 Copynumber: 2.1 Consensus size: 173
203403 CATTCTGATT
*
203413 TAACGTATGGTTACCACCCTAGTCAAATCTGCCTATTTC-TTG-TCTAG-CGTATGGTTACC-CC
1 TAACGTATGGTTACCACCCTAGTCAAAT-T--CT-TTTCTTTGAT-TAGACATAT-GTTACCACC
* * * * * *
203474 TTGGTCAAATCTACCTCCTTCCTATCTGACGTATGGTTACCACCCTAGTTAGATTCTTTTCA-TT
60 CTGATCAAATCTACCTCCTTCCTATCTGACATATGGTTAACACCATAGTCAGATTCTTTTCATTT
* *
203538 CTGATTTAACATATGATTACCACCTTGATCAAGTCTGCCTCATTCCTGTC
125 C-GATTTAACATATGATTACCACCCTGATCAAATCTGCCTCATTCCTGTC
* * * *
203588 TGACGTATGGTTACCACCTTAGTCAGATTCTTTTCATTTTGATTTGACATATGTTACCACCCTGA
1 TAACGTATGGTTACCACCCTAGTCAAATTCTTTTC--TTTGATTAGACATATGTTACCACCCTGA
* * * * *
203653 TCAAATCTGCCTCTTTCTTGTCTGACATATGGTTAACACCATGGTCAGATTCTTTTCATTTCGAT
64 TCAAATCTACCTCCTTCCTATCTGACATATGGTTAACACCATAGTCAGATTCTTTTCATTTCGAT
* * ** * * * *
203718 TTGACATATGGTTAGGACCCTGGTCAAATCTGCCTCCTTCTTGTT
129 TTAACATATGATTACCACCCTGATCAAATCTGCCTCATTCCTGTC
*
203763 TAACGTATGGTTAACACCCTAGTCA
1 TAACGTATGGTTACCACCCTAGTCA
203788 CATGATTTGC
Statistics
Matches: 164, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
171 4 0.02
172 2 0.01
174 12 0.07
175 143 0.87
176 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (173 bp):
TAACGTATGGTTACCACCCTAGTCAAATTCTTTTCTTTGATTAGACATATGTTACCACCCTGATC
AAATCTACCTCCTTCCTATCTGACATATGGTTAACACCATAGTCAGATTCTTTTCATTTCGATTT
AACATATGATTACCACCCTGATCAAATCTGCCTCATTCCTGTC
Found at i:203601 original size:88 final size:87
Alignment explanation
Indices: 203462--203787 Score: 395
Period size: 88 Copynumber: 3.7 Consensus size: 87
203452 TTGTCTAGCG
* * * * * *
203462 TATGGTTACC-CCTTGGTCAAATCTACCTCCTTCCTATCTGACGTATGGTTACCACCCTAGTTAG
1 TATGGTTACCACCCTGATCAAATCTGCCTCCTTCCTGTCTGACGTATGGTTAACACCCTAGTCAG
*
203526 ATTCTTTTCATTCTGATTTAACA
66 ATTCTTTTCATT-TGATTTGACA
* * * * * *
203549 TATGATTACCACCTTGATCAAGTCTGCCTCATTCCTGTCTGACGTATGGTTACCACCTTAGTCAG
1 TATGGTTACCACCCTGATCAAATCTGCCTCCTTCCTGTCTGACGTATGGTTAACACCCTAGTCAG
203614 ATTCTTTTCATTTTGATTTGACA
66 ATTCTTTTCA-TTTGATTTGACA
* * * * *
203637 TAT-GTTACCACCCTGATCAAATCTGCCTCTTTCTTGTCTGACATATGGTTAACACCATGGTCAG
1 TATGGTTACCACCCTGATCAAATCTGCCTCCTTCCTGTCTGACGTATGGTTAACACCCTAGTCAG
203701 ATTCTTTTCATTTCGATTTGACA
66 ATTCTTTTCATTT-GATTTGACA
** * * * *
203724 TATGGTTAGGACCCTGGTCAAATCTGCCTCCTTCTTGTTTAACGTATGGTTAACACCCTAGTCA
1 TATGGTTACCACCCTGATCAAATCTGCCTCCTTCCTGTCTGACGTATGGTTAACACCCTAGTCA
203788 CATGATTTGC
Statistics
Matches: 208, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
86 3 0.01
87 83 0.40
88 120 0.58
89 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (87 bp):
TATGGTTACCACCCTGATCAAATCTGCCTCCTTCCTGTCTGACGTATGGTTAACACCCTAGTCAG
ATTCTTTTCATTTGATTTGACA
Found at i:203782 original size:44 final size:44
Alignment explanation
Indices: 203402--203787 Score: 209
Period size: 44 Copynumber: 8.8 Consensus size: 44
203392 CAGATTCTTT
* *
203402 TCATTC-TGATTTAACGTATGGTTACCACCCTAGTCAAATCTGCC
1 TCATTCTTG-TTTGACGTATGGTTACCACCCTGGTCAAATCTGCC
* * *
203446 T-ATTTCTTGTCT-AGCGTATGGTTACC-CCTTGGTCAAATCTACC
1 TCA-TTCTTGTTTGA-CGTATGGTTACCACCCTGGTCAAATCTGCC
* * * * * * * **
203489 TCCTTCCTATCTGACGTATGGTTACCACCCTAGTTAGATTCT-TT
1 TCATTCTTGTTTGACGTATGGTTACCACCCTGGTCA-AATCTGCC
* * * * * *
203533 TCATTC-TGATTTAACATATGATTACCACCTTGATCAAGTCTGCC
1 TCATTCTTG-TTTGACGTATGGTTACCACCCTGGTCAAATCTGCC
* * * * * **
203577 TCATTCCTGTCTGACGTATGGTTACCACCTTAGTCAGATTCT-TT
1 TCATTCTTGTTTGACGTATGGTTACCACCCTGGTCA-AATCTGCC
* *
203621 TCATT-TTGATTTGACATAT-GTTACCACCCTGATCAAATCTGCC
1 TCATTCTTG-TTTGACGTATGGTTACCACCCTGGTCAAATCTGCC
* * * * * * **
203664 TCTTTCTTGTCTGACATATGGTTAACACCATGGTCAGATTCT-TT
1 TCATTCTTGTTTGACGTATGGTTACCACCCTGGTCA-AATCTGCC
* * **
203708 TCATT-TCGATTTGACATATGGTTAGGACCCTGGTCAAATCTGCC
1 TCATTCTTG-TTTGACGTATGGTTACCACCCTGGTCAAATCTGCC
* * * *
203752 TCCTTCTTGTTTAACGTATGGTTAACACCCTAGTCA
1 TCATTCTTGTTTGACGTATGGTTACCACCCTGGTCA
203788 CATGATTTGC
Statistics
Matches: 255, Mismatches: 68, Indels: 38
0.71 0.19 0.11
Matches are distributed among these distances:
42 4 0.02
43 75 0.29
44 158 0.62
45 18 0.07
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (44 bp):
TCATTCTTGTTTGACGTATGGTTACCACCCTGGTCAAATCTGCC
Found at i:204159 original size:43 final size:43
Alignment explanation
Indices: 203893--204478 Score: 457
Period size: 42 Copynumber: 13.8 Consensus size: 43
203883 TGGCTTAGGC
* * * * *
203893 CCCA-GAGACTTT-TTCAACTTTTGTTTACCCATCGGCTTAGA
1 CCCAGGAGACTTTCTTTATCTTTTGTCTGCCCATCGGCTCAGA
* * * *
203934 CCCAAGAGACTTTC-TTATCTTTTGTCTACCCATCGACTTAGA
1 CCCAGGAGACTTTCTTTATCTTTTGTCTGCCCATCGGCTCAGA
* * * * * *
203976 CTC-GGAAGAC-TTCTTTATCTTTTATATGCCTATCAGCTCAAA
1 CCCAGG-AGACTTTCTTTATCTTTTGTCTGCCCATCGGCTCAGA
* * *
204018 CCCAGGAGAC-TTCCTTATCTTTTGTCTG-CCAGTCAGCTTAGA
1 CCCAGGAGACTTTCTTTATCTTTTGTCTGCCCA-TCGGCTCAGA
* * * * *
204060 CCCAAGAGAC-ATCTTTATCTTTTTGTTTGCCCGTTCGGCTAAGA
1 CCCAGGAGACTTTCTTTATC-TTTTGTCTGCCC-ATCGGCTCAGA
* * * * *
204104 CCCAAGATACTTTCTTTATCTTTTGTCTACCTATCAGCTCAGA
1 CCCAGGAGACTTTCTTTATCTTTTGTCTGCCCATCGGCTCAGA
* * * *
204147 CCCAGGACACTTTTTTTATCTTTTGTCTTCCCATCAGCTCAGA
1 CCCAGGAGACTTTCTTTATCTTTTGTCTGCCCATCGGCTCAGA
* * *
204190 CTC-GAGAGACTTTCTTTATCTTTTGTTTGCCCGTCGGCTCAGA
1 CCCAG-GAGACTTTCTTTATCTTTTGTCTGCCCATCGGCTCAGA
* * * * *
204233 -CCTGGCAGACTTTCTCTATCTTTTGTTTGCCCGTTGGCTCAGA
1 CCCAGG-AGACTTTCTTTATCTTTTGTCTGCCCATCGGCTCAGA
* * * *
204276 CCCAGGAGA-TTTCTTTATCTTTTATCTGCTCGTCGGCTCAAA
1 CCCAGGAGACTTTCTTTATCTTTTGTCTGCCCATCGGCTCAGA
** *
204318 TGCAAGAGAC-TTCTTTATCTTTTGTCTGCCCATCGGCTC-GA
1 CCCAGGAGACTTTCTTTATCTTTTGTCTGCCCATCGGCTCAGA
* * * * *
204359 CCTAGGAGAC-TTCTTTATCTTTTGTCTACTCATTGACTCAGA
1 CCCAGGAGACTTTCTTTATCTTTTGTCTGCCCATCGGCTCAGA
* * * * *
204401 CCCAAGAGACTTT-TTAATCCTTTGTCTGCCCATCAGCTCAAA
1 CCCAGGAGACTTTCTTTATCTTTTGTCTGCCCATCGGCTCAGA
* * *
204443 TCC-GAGAGACTTTCATTATCTTTTATCTGCCCATCG
1 CCCAG-GAGACTTTCTTTATCTTTTGTCTGCCCATCG
204479 ACCTAGACCT
Statistics
Matches: 436, Mismatches: 90, Indels: 36
0.78 0.16 0.06
Matches are distributed among these distances:
41 42 0.10
42 206 0.47
43 148 0.34
44 32 0.07
45 8 0.02
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.37
Consensus pattern (43 bp):
CCCAGGAGACTTTCTTTATCTTTTGTCTGCCCATCGGCTCAGA
Found at i:208385 original size:151 final size:153
Alignment explanation
Indices: 208035--208401 Score: 524
Period size: 153 Copynumber: 2.4 Consensus size: 153
208025 CATTCTCTCA
* * *
208035 CATCTAATCCTTTTAAGTCCTTTAAGGGTATTGGGTACTTTCATGTCGAAGGTATCCCCTAGGGG
1 CATCTAATCCTTTTAAGTCCTTTAAGGGTATTGGGTACTTTCACGTCGAAGGTATCCCTTAGGAG
* * * * * **
208100 TATTTTCATAATTTTTTTAGAACCAAGTCCTAGGTCATCACCGGGTCTGCTTTTATGCCAAAGGT
66 CATTTCCATAATTTTTCTAGAAACAAGTCCTAGGTCATCACCAGGTCCACTTTTATGCCAAAGGT
208165 GGACATTCAGGATAGGTTTATCC
131 GGACATTCAGGATAGGTTTATCC
*** * * *
208188 CATCTAATCCTTTTAAGTCCTTTAAGGGTATCAAGCATTTTAACGTCGAAGGTATCCCTTAGGAG
1 CATCTAATCCTTTTAAGTCCTTTAAGGGTATTGGGTACTTTCACGTCGAAGGTATCCCTTAGGAG
*
208253 CATTTCCGTAATTTTTCTA-AAACAAGTCCTAGGTCATCACCAGGTCCACTTTTATGCCAAAGGT
66 CATTTCCATAATTTTTCTAGAAACAAGTCCTAGGTCATCACCAGGTCCACTTTTATGCCAAAGGT
208317 GGACATT-AGGATA-GTTTCATCC
131 GGACATTCAGGATAGGTTT-ATCC
* * *
208339 CATTTAATCCTTTTAAGTCCTTTAGGGGTATTGGGTACTTTCACGTCGAAGGTATCTCTTAGG
1 CATCTAATCCTTTTAAGTCCTTTAAGGGTATTGGGTACTTTCACGTCGAAGGTATCCCTTAGG
208402 GGTATTTTAG
Statistics
Matches: 187, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
150 4 0.02
151 64 0.34
152 48 0.26
153 71 0.38
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (153 bp):
CATCTAATCCTTTTAAGTCCTTTAAGGGTATTGGGTACTTTCACGTCGAAGGTATCCCTTAGGAG
CATTTCCATAATTTTTCTAGAAACAAGTCCTAGGTCATCACCAGGTCCACTTTTATGCCAAAGGT
GGACATTCAGGATAGGTTTATCC
Found at i:208444 original size:151 final size:150
Alignment explanation
Indices: 208039--208551 Score: 530
Period size: 151 Copynumber: 3.4 Consensus size: 150
208029 CTCTCACATC
* * *
208039 TAATCCTTTTAAGTCCTTTAAGGGTATTGGGTACTTTCATGTCGAAGGTATCCCCTAGGGGTATT
1 TAATCCTTTTAAGTCCTTTAAGGGTATCGGGTACTTTCACGTCGAAGGTATCCCTTAGGGGTATT
* *
208104 TTCATAATTTTTTTAGAACCAAGTCCTAGGTCATCACCGGGTCTGCTTTTATGCCAAAGGTGGAC
66 TT-AGAAATTTTTTAGAACCAAGTCCTAGGTCATCACC-GGTCTGCTTTTATGCCAAAGGTGGAC
*
208169 ATTCAGGATAGGTTTATCCCATC
129 ATT-AGGATAGGTTTATCCCATT
** * * * * *
208192 TAATCCTTTTAAGTCCTTTAAGGGTATCAAGCATTTTAACGTCGAAGGTATCCCTTAGGAGCATT
1 TAATCCTTTTAAGTCCTTTAAGGGTATCGGGTACTTTCACGTCGAAGGTATCCCTTAGGGGTATT
** * * **
208257 TCCGTAATTTTTCTA-AAACAAGTCCTAGGTCATCACCAGGTCCACTTTTATGCCAAAGGTGGAC
66 TTAGAAATTTTT-TAGAACCAAGTCCTAGGTCATCACC-GGTCTGCTTTTATGCCAAAGGTGGAC
208321 ATTAGGATA-GTTTCATCCCATT
129 ATTAGGATAGGTTT-ATCCCATT
* * *
208343 TAATCCTTTTAAGTCCTTTAGGGGTATTGGGTACTTTCACGTCGAAGGTATCTCTTAGGGGTATT
1 TAATCCTTTTAAGTCCTTTAAGGGTATCGGGTACTTTCACGTCGAAGGTATCCCTTAGGGGTATT
* * ** ** *
208408 TTAGAAAATTTTTAGAACCGAA-TCGTAGGTTGTCACCGCGTCTGCTTTTATGCTGAAGGTAGAT
66 TTAGAAATTTTTTAGAACC-AAGTCCTAGGTCATCACCG-GTCTGCTTTTATGCCAAAGGTGGA-
** * * **
208472 GTTTAGGATATGTTTGTCCTTTT
128 CATTAGGATAGGTTTATCCCATT
* ** *
208495 TAAAATCTTTTTTAAGTTATTTAGGGGTATCGGGTAC-TTCTACGTCGAAGGTATCCC
1 T--AATC-CTTTTAAGTCCTTTAAGGGTATCGGGTACTTTC-ACGTCGAAGGTATCCC
208552 CTAAAGGCAT
Statistics
Matches: 296, Mismatches: 53, Indels: 20
0.80 0.14 0.05
Matches are distributed among these distances:
150 7 0.02
151 110 0.37
152 70 0.24
153 62 0.21
154 7 0.02
155 40 0.14
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (150 bp):
TAATCCTTTTAAGTCCTTTAAGGGTATCGGGTACTTTCACGTCGAAGGTATCCCTTAGGGGTATT
TTAGAAATTTTTTAGAACCAAGTCCTAGGTCATCACCGGTCTGCTTTTATGCCAAAGGTGGACAT
TAGGATAGGTTTATCCCATT
Found at i:217132 original size:52 final size:51
Alignment explanation
Indices: 217047--217170 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 51
217037 ATATGAAAAG
* *
217047 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
217098 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
*
217150 TTGCCTGCATGTATCAATACA
1 TTGCCTGCATGTATCGATACA
217171 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 20 0.29
52 43 0.63
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:217183 original size:51 final size:52
Alignment explanation
Indices: 217047--217190 Score: 159
Period size: 52 Copynumber: 2.8 Consensus size: 52
217037 ATATGAAAAG
* * **
217047 TTGCTTGCATGTATCGATAC-ATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCAATACAAGATAA-AGTGTATCGATACATCTGGGCAAAT
* *** *
217099 TTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCAATACAAGATAAAGTGTATCGATACATCTGGGCAAAT
*
217150 TTGCCTGCATGTATCAATACAAAGAT-CAGTGTATCGATACA
1 TTGCCTGCATGTATCAATAC-AAGATAAAGTGTATCGATACA
217191 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
51 32 0.40
52 44 0.54
53 5 0.06
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (52 bp):
TTGCCTGCATGTATCAATACAAGATAAAGTGTATCGATACATCTGGGCAAAT
Found at i:217197 original size:13 final size:13
Alignment explanation
Indices: 217179--217203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
217169 CAAAGATCAG
217179 TGTATCGATACAA
1 TGTATCGATACAA
217192 TGTATCGATACA
1 TGTATCGATACA
217204 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:217281 original size:33 final size:33
Alignment explanation
Indices: 217244--217310 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
217234 AGTAGCTTAA
217244 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
217277 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
217310 A
1 A
217311 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:217284 original size:13 final size:13
Alignment explanation
Indices: 217266--217290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
217256 CAAAAAAATA
217266 TGTATCGATACAT
1 TGTATCGATACAT
217279 TGTATCGATACA
1 TGTATCGATACA
217291 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:217895 original size:13 final size:13
Alignment explanation
Indices: 217877--217902 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
217867 ACATTTTGGG
217877 ATGTATCGATACA
1 ATGTATCGATACA
217890 ATGTATCGATACA
1 ATGTATCGATACA
217903 TATTTATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:217897 original size:33 final size:33
Alignment explanation
Indices: 217855--217923 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
217845 CGTTACAAGC
*
217855 CAATGTATCGATACAT-TTTGGGATGTATCGATA
1 CAATGTATCGATACATATTTAGG-TGTATCGATA
*
217888 CAATGTATCGATACATATTTATGTGTATCGATA
1 CAATGTATCGATACATATTTAGGTGTATCGATA
217921 CAA
1 CAA
217924 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (33 bp):
CAATGTATCGATACATATTTAGGTGTATCGATA
Found at i:218022 original size:13 final size:13
Alignment explanation
Indices: 218004--218028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
217994 ACATTTGGTC
218004 ATGTATCGATACA
1 ATGTATCGATACA
218017 ATGTATCGATAC
1 ATGTATCGATAC
218029 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:218650 original size:16 final size:16
Alignment explanation
Indices: 218626--218656 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
218616 CCTTAATAAA
*
218626 GCAATTTAACAATTTC
1 GCAAATTAACAATTTC
218642 GCAAATTAACAATTT
1 GCAAATTAACAATTT
218657 TTTCTCCCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.35
Consensus pattern (16 bp):
GCAAATTAACAATTTC
Found at i:218694 original size:37 final size:37
Alignment explanation
Indices: 218653--218743 Score: 137
Period size: 38 Copynumber: 2.4 Consensus size: 37
218643 CAAATTAACA
*
218653 ATTTTTTCTCCCCCTTAATCATAAAATTTATTTATAG
1 ATTTTTTCTCCCCCTTAATCATAAAATTTATTTACAG
218690 ATTTTTTTCTCCCCCTTAATCATAAAATTTATTTACAG
1 A-TTTTTTCTCCCCCTTAATCATAAAATTTATTTACAG
** *
218728 AGATTCTCTCCCCCTT
1 ATTTTTTCTCCCCCTT
218744 TTTGTTATAG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 13 0.27
38 36 0.73
ACGTcount: A:0.26, C:0.24, G:0.03, T:0.46
Consensus pattern (37 bp):
ATTTTTTCTCCCCCTTAATCATAAAATTTATTTACAG
Found at i:220085 original size:20 final size:22
Alignment explanation
Indices: 220046--220090 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
220036 GCTGCTAGTG
*
220046 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
220068 TGGGGG-TG-CCGGTCGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
220088 TGG
1 TGG
220091 TGAGTGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 2 0.09
22 6 0.27
ACGTcount: A:0.04, C:0.29, G:0.49, T:0.18
Consensus pattern (22 bp):
TGGGGGCTGCCCGGTCGCGACC
Found at i:220547 original size:13 final size:13
Alignment explanation
Indices: 220529--220564 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
220519 ATAAACCCTT
* *
220529 TGTATCGATGCAG
1 TGTATCGATACAA
220542 TGTATCGATACAA
1 TGTATCGATACAA
220555 TGTATCGATA
1 TGTATCGATA
220565 TAGAGAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:220782 original size:8 final size:8
Alignment explanation
Indices: 220764--220802 Score: 69
Period size: 8 Copynumber: 4.8 Consensus size: 8
220754 TTTTCAACAT
220764 CAAACATCA
1 CAAA-ATCA
220773 CAAAATCA
1 CAAAATCA
220781 CAAAATCA
1 CAAAATCA
220789 CAAAATCA
1 CAAAATCA
220797 CAAAAT
1 CAAAAT
220803 TTAATCAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 26 0.87
9 4 0.13
ACGTcount: A:0.62, C:0.26, G:0.00, T:0.13
Consensus pattern (8 bp):
CAAAATCA
Found at i:226137 original size:13 final size:13
Alignment explanation
Indices: 226119--226144 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
226109 ACATTTTGGG
226119 ATGTATCGATACA
1 ATGTATCGATACA
226132 ATGTATCGATACA
1 ATGTATCGATACA
226145 TATTTATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:226139 original size:33 final size:33
Alignment explanation
Indices: 226097--226165 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
226087 CGTTACAGGC
*
226097 CAATGTATCGATACAT-TTTGGGATGTATCGATA
1 CAATGTATCGATACATATTTAGG-TGTATCGATA
*
226130 CAATGTATCGATACATATTTATGTGTATCGATA
1 CAATGTATCGATACATATTTAGGTGTATCGATA
226163 CAA
1 CAA
226166 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (33 bp):
CAATGTATCGATACATATTTAGGTGTATCGATA
Found at i:226257 original size:20 final size:20
Alignment explanation
Indices: 226206--226258 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
226196 ACCAATCACC
*
226206 TGTATCGATACATTTTTTGTA
1 TGTATCGATACA-TTTTGGTA
* *
226227 AGTATCAATACA-TTTGGTCA
1 TGTATCGATACATTTTGGT-A
226247 TGTATCGATACA
1 TGTATCGATACA
226259 ATGTATCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 5 0.19
20 11 0.42
21 10 0.38
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTTGGTA
Found at i:227445 original size:309 final size:310
Alignment explanation
Indices: 226997--227621 Score: 730
Period size: 316 Copynumber: 2.0 Consensus size: 310
226987 CTAGCATTAA
*
226997 TGTTAGGATCTTGGTTTTGATATAAAAAAATATGAATAAAAACCGAAAAATACTTTGAAAAATCA
1 TGTTAGGATCTTGGTTTTGATATAAAAAAATATGAATAAAAACCGAAAAATACTTTGAAAAACCA
* * * * *
227062 TAATAAGTTTTATTCATTCAAAAATACTCTAAAAACCTTGTTCAAAATAGTTTTCAATATAAAAG
66 TAACAAGTTTTATTCACTCAAAAAAACTCTAAAAACCATGTTCAAAATAATTTTCAATATAAAAG
** * * * **
227127 TCATTTTAGAGTTACGTATAAGTG-TTTTCAAGCC-TTAAA-TCCCAAAGTCAAATTTA-TCCAA
131 T-ATTTTAGAGTTACAAAAAAATGTTTTTCAA-CCTTTAAAGTCCCAAAGGCAAAACTATTCCAA
*
227188 AGTATCAATACATAGGTGTTTGTATCGATACATTAAGGTTGACTTAGGCTACAAAAGGTCAAAA-
194 AGTATCAATACATAGGTATTTGTATCGATACATTAAGGTTGACTTAGGCTAC-AAAGGTCAAAAC
* ** *
227252 CTTTAGAAAGTATCGATACACACTGAGATGTATCGATATATTATGCTTTGTATT
258 CCTT-GAAAGTATCGATACACACCCAGATGTATCGATACATTATGCTTTGTATT
* *
227306 TGTTAGGATCTTGGTTTTGATATAACAAAAAT-TGAAT-AAAATCGAAAAAT-GTTTGAAAAACC
1 TGTTAGGATCTTGGTTTTGATATAA-AAAAATATGAATAAAAACCGAAAAATACTTTGAAAAACC
* * *
227368 ATACACAAGTTTTATTCACTCAAAAAAACTCTCTAAAAA-CATGTTCTAAGTAATTTTCTATCAA
65 ATA-ACAAGTTTTATTCACTCAAAAAAA--CTCTAAAAACCATGTTCAAAATAATTTTCAAT--A
** * * ****
227432 TGGAAGT-TTTTAGAGTTATAAAAAAATGTTTTTGAACCTTAATTTAAATGTTTTTAAGGCAAAA
125 TAAAAGTATTTTAGAGTTACAAAAAAATGTTTTTCAACC----TTTAAA-GTCCCAAAGGCAAAA
* * *
227496 CTATTTCAAAGTATCGATACATAGGTATTTGTATCGATACATTATGGTTGACTTAGGCTACAAAG
185 CTATTCCAAAGTATCAATACATAGGTATTTGTATCGATACATTAAGGTTGACTTAGGCTACAAAG
*
227561 GTCAAAACCCTTGAATGTATCGATACACACCCAGATGTATCGATACATTATGCTTTGTATT
250 GTCAAAACCCTTGAAAGTATCGATACACACCCAGATGTATCGATACATTATGCTTTGTATT
227622 GATACATTAT
Statistics
Matches: 265, Mismatches: 35, Indels: 25
0.82 0.11 0.08
Matches are distributed among these distances:
307 13 0.05
308 33 0.12
309 65 0.25
310 21 0.08
311 6 0.02
314 5 0.02
316 66 0.25
317 56 0.21
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (310 bp):
TGTTAGGATCTTGGTTTTGATATAAAAAAATATGAATAAAAACCGAAAAATACTTTGAAAAACCA
TAACAAGTTTTATTCACTCAAAAAAACTCTAAAAACCATGTTCAAAATAATTTTCAATATAAAAG
TATTTTAGAGTTACAAAAAAATGTTTTTCAACCTTTAAAGTCCCAAAGGCAAAACTATTCCAAAG
TATCAATACATAGGTATTTGTATCGATACATTAAGGTTGACTTAGGCTACAAAGGTCAAAACCCT
TGAAAGTATCGATACACACCCAGATGTATCGATACATTATGCTTTGTATT
Found at i:227653 original size:19 final size:19
Alignment explanation
Indices: 227625--227680 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
227615 TTGTATTGAT
* *
227625 ACATTATATCGATACATAT
1 ACATTGTATCGATACATAG
* *
227644 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATAG
227663 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
227681 GAAACTGACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATAG
Found at i:227658 original size:32 final size:33
Alignment explanation
Indices: 227598--227660 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
227588 CACCCAGATG
* *
227598 TATCGATACATTATGCTTTGTATTGATACATTA
1 TATCGATACATTATGCATTGTATCGATACATTA
*
227631 TATCGATACA-TATTCATTGTATCGATACAT
1 TATCGATACATTATGCATTGTATCGATACAT
227661 GGACAATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTA
Found at i:227737 original size:20 final size:20
Alignment explanation
Indices: 227712--227763 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
227702 ACCACTGTTA
*
227712 GTATCGATACATGGT-ATATT
1 GTATCGATACATGATGA-ATT
227732 GTATCGATACATGATGAATT
1 GTATCGATACATGATGAATT
227752 GTATCGATACAT
1 GTATCGATACAT
227764 TGCCTATAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (20 bp):
GTATCGATACATGATGAATT
Found at i:228331 original size:13 final size:13
Alignment explanation
Indices: 228313--228339 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
228303 ACATGCTGCT
228313 TTGTATCGATACA
1 TTGTATCGATACA
228326 TTGTATCGATACA
1 TTGTATCGATACA
228339 T
1 T
228340 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:228336 original size:33 final size:32
Alignment explanation
Indices: 228294--228358 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
228284 CACACCCAGA
*
228294 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
228327 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
228359 GGACAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:228370 original size:21 final size:19
Alignment explanation
Indices: 228323--228379 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
228313 TTGTATCGAT
*
228323 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
228342 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
228361 ACAAATTGTATCGATACAT
1 AC--ATTGTATCGATACAT
228380 AAAATTGGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.55
21 15 0.45
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:228452 original size:19 final size:19
Alignment explanation
Indices: 228410--228461 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
228400 TATCACTATT
*
228410 TGTATCGATACATGGTATAA
1 TGTATCGATACAT-GTAAAA
228430 TGTATCGATACAT-TAGAAA
1 TGTATCGATACATGTA-AAA
228449 TGTATCGATACAT
1 TGTATCGATACAT
228462 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 2 0.07
19 15 0.50
20 13 0.43
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATGTAAAA
Found at i:228507 original size:698 final size:700
Alignment explanation
Indices: 227306--228646 Score: 2052
Period size: 698 Copynumber: 1.9 Consensus size: 700
227296 GCTTTGTATT
* *
227306 TGTTAGGATCTTGGTTTTGATATAACAAAAATTGAATAAAATCGAAAAATGTTTGAAAAACCATA
1 TGTTAGGATCTTGGTTTTGATATAACAAAAATTGAATAAAACCGAAAAATGTTGGAAAAACCATA
* * ** * *
227371 CACAAGTTTTATTCACTCAAAAAAACTCTCTAAAAACATGTTCTAAGTAATTTTCTATCAATGGA
66 AACAAGTTTTATTCACTC-AAAAAACACTCTAAAAACACATTCTAAATAATTTTCTATCAATGAA
* * **
227436 AGTTTTTAGAGTTATAAAAAAATGTTTTTGAACCTTAATTTAAATGTTTTTAAGGCAAAACTATT
130 AGTTTTTAGAGTTATAAAAAAATGTTTTTAAACCTTAATTCAAATGTTTTTAAGGCAAAACTAAC
* * *
227501 TCAAAGTATCGATACATAGGTATTTGTATCGATACATTATGGTTGACTTAGGCTACAAAGGTCAA
195 TCAAAGTATCGATACATAGGTAATTGTATCGATACATTATGGTTGACTTAGGCTAAAAAGATCAA
* *
227566 AACCCTTGAATGTATCGATACACACCCAGATGTATCGATACATTATGCTTTGTATTGATACATTA
260 AACCCTTGAATGTATCGATACACACCCAGATGTATCGATACATGATGCTTTGTATCGATACATTA
*
227631 TATCGATACATATTCATTGTATCGATACATGGACAATTGTATCGATACATGAAACTGACAGTAAC
325 TATCGATACATATTCATTGTATCGATACATGGACAATTGTATCGATACATAAAACTGACAGTAAC
* * *
227696 TACCCTACCACTGTTAGTATCGATACATGGTATATTGTATCGATACATGATGAATTGTATCGATA
390 TACCCTACCACTATTAGTATCGATACATGGTATAATGTATCGATACATGATGAAATGTATCGATA
*
227761 CATTGCCTATAACGGCTATAAACGGCTATAATTTCAAATCAATGTATCGATACATTATGAATTGT
455 CATAGCCTATAACGGCTATAAACGGCTATAATTTCAAATCAATGTATCGATACATTATGAATTGT
* *
227826 ATCAATACATGGCTATGGGAATGCATTG-AAACAAGCACCAAACAAG-TCAATAACGACTAGAAA
520 ATCAATACATGGCTACGGGAAAGCA-TGAAAACAAGCACCAAACAAGCT-AATAACGACTAGAAA
* * ** *
227889 CACAATCATTCAACCTCTAACGGATATGTCAGCATTCAAGCCTATAAATTTGAGTTTCCAACAGC
583 CACAATCATTCAACCTCCAACAGATACATCAGCATTCAAGCCTATAAATATGAGTTTCCAACAGC
227954 TAAAATGCAAGAGAATCAACCAATAGACAACAAGAGTTCAAAGTATTCAAAGA
648 TAAAATGCAAGAGAATCAACCAATAGACAACAAGAGTTCAAAGTATTCAAAGA
228007 TGTTAGGATCTTGGTTTTGATATAA-AAAAGATTGAATAAAACCGAAAAATGTTGGAAAAACCAT
1 TGTTAGGATCTTGGTTTTGATATAACAAAA-ATTGAATAAAACCGAAAAATGTTGGAAAAACCAT
*
228071 AAACAAGTTTTATTCACTC-AAAAACACTCTAAAAACACATTCTAAATGATTTTCTATCAAT-AA
65 AAACAAGTTTTATTCACTCAAAAAACACTCTAAAAACACATTCTAAATAATTTTCTATCAATGAA
** * * *
228134 A-TGTTTTAGAGTTATAAACGAATGTTTTTAAACGTTAAATTCAAGTGTTTTTAA-GTAAAAC-A
130 AGT-TTTTAGAGTTATAAAAAAATGTTTTTAAACCTT-AATTCAAATGTTTTTAAGGCAAAACTA
*
228196 CACTCAAAGTATCGATACATAGGTAATTGTATCGATATATTATGGTTGACTTAGGCTAAAAAGAT
193 -ACTCAAAGTATCGATACATAGGTAATTGTATCGATACATTATGGTTGACTTAGGCTAAAAAGAT
*
228261 CAAAACCCTTGAATGTATCGATACACACCCAGATGTATCGATACATGCTGCTTTGTATCGATACA
257 CAAAACCCTTGAATGTATCGATACACACCCAGATGTATCGATACATGATGCTTTGTATCGATACA
* * * *
228326 TTGTATCGATACATGTTCATTGTATCGATACATGGACAAATTGTATCGATACATAAAATTGGCAG
322 TTATATCGATACATATTCATTGTATCGATACATGGAC-AATTGTATCGATACATAAAACTGACAG
* * * *
228391 TAGCTACCCTATCACTATTTGTATCGATACATGGTATAATGTATCGATACATTA-GAAATGTATC
386 TAACTACCCTACCACTATTAGTATCGATACATGGTATAATGTATCGATACATGATGAAATGTATC
* *
228455 GATACATAGCTTGTAACGGCTATAAACGGCTATAATTTCAAATCAATGTATCGATACATTATGAA
451 GATACATAGCCTATAACGGCTATAAACGGCTATAATTTCAAATCAATGTATCGATACATTATGAA
* * ** * *
228520 TTGTATCGATACATGGCTACGGGAAAGCATGAAAATAAGCACCAAACAAGCTTGTAACGGCTAGT
516 TTGTATCAATACATGGCTACGGGAAAGCATGAAAACAAGCACCAAACAAGCTAATAACGACTAGA
* *
228585 AACTCAATCATTCAACCTCCAACAGCTACATCAGCATTCAAGCCTATAAATATGAGTTTCCA
581 AACACAATCATTCAACCTCCAACAGATACATCAGCATTCAAGCCTATAAATATGAGTTTCCA
228647 GCACCTGAAC
Statistics
Matches: 578, Mismatches: 55, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
697 4 0.01
698 370 0.64
699 125 0.22
700 4 0.01
701 75 0.13
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (700 bp):
TGTTAGGATCTTGGTTTTGATATAACAAAAATTGAATAAAACCGAAAAATGTTGGAAAAACCATA
AACAAGTTTTATTCACTCAAAAAACACTCTAAAAACACATTCTAAATAATTTTCTATCAATGAAA
GTTTTTAGAGTTATAAAAAAATGTTTTTAAACCTTAATTCAAATGTTTTTAAGGCAAAACTAACT
CAAAGTATCGATACATAGGTAATTGTATCGATACATTATGGTTGACTTAGGCTAAAAAGATCAAA
ACCCTTGAATGTATCGATACACACCCAGATGTATCGATACATGATGCTTTGTATCGATACATTAT
ATCGATACATATTCATTGTATCGATACATGGACAATTGTATCGATACATAAAACTGACAGTAACT
ACCCTACCACTATTAGTATCGATACATGGTATAATGTATCGATACATGATGAAATGTATCGATAC
ATAGCCTATAACGGCTATAAACGGCTATAATTTCAAATCAATGTATCGATACATTATGAATTGTA
TCAATACATGGCTACGGGAAAGCATGAAAACAAGCACCAAACAAGCTAATAACGACTAGAAACAC
AATCATTCAACCTCCAACAGATACATCAGCATTCAAGCCTATAAATATGAGTTTCCAACAGCTAA
AATGCAAGAGAATCAACCAATAGACAACAAGAGTTCAAAGTATTCAAAGA
Found at i:236943 original size:16 final size:17
Alignment explanation
Indices: 236911--236945 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
236901 GGGAGAAGAT
236911 AATTGTTTAAGGGGGAG
1 AATTGTTTAAGGGGGAG
*
236928 AATTTTTTAA-GGGGAG
1 AATTGTTTAAGGGGGAG
236944 AA
1 AA
236946 AAATGAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (17 bp):
AATTGTTTAAGGGGGAG
Found at i:237499 original size:13 final size:13
Alignment explanation
Indices: 237481--237507 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
237471 ACATGCTGCT
237481 TTGTATCGATACA
1 TTGTATCGATACA
237494 TTGTATCGATACA
1 TTGTATCGATACA
237507 T
1 T
237508 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:237522 original size:32 final size:33
Alignment explanation
Indices: 237462--237526 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
237452 CACACCCAGA
* *
237462 TGTATTGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATGCTGCATTGTATCGATACAT
*
237495 TGTATCGATACATG-TTCATTGTATCGATACAT
1 TGTATCGATACATGCTGCATTGTATCGATACAT
237527 GGACAAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGCTGCATTGTATCGATACAT
Found at i:237538 original size:21 final size:19
Alignment explanation
Indices: 237491--237548 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
237481 TTGTATCGAT
*
237491 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
237510 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
237529 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
237549 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:240380 original size:21 final size:20
Alignment explanation
Indices: 240346--240388 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
240336 TATTAAAAAG
*
240346 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAACAA-GAA
240367 TTAGCTAA-GAAAAACAAGAA
1 TTAGCTAATG-AAAACAAGAA
240387 TT
1 TT
240389 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (20 bp):
TTAGCTAATGAAAACAAGAA
Found at i:240387 original size:20 final size:21
Alignment explanation
Indices: 240346--240388 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
240336 TATTAAAAAG
*
240346 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAATAAAGAA
240367 TTAGCTAA-GAAAA-ACAAGAA
1 TTAGCTAATGAAAATA-AAGAA
240387 TT
1 TT
240389 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (21 bp):
TTAGCTAATGAAAATAAAGAA
Found at i:242660 original size:26 final size:26
Alignment explanation
Indices: 242624--242683 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
242614 CTATGCACCC
242624 GTTGCTAGGTTAGAAGCCAGTAGAAT
1 GTTGCTAGGTTAGAAGCCAGTAGAAT
*
242650 GTTGCTAGGTTAGAAGCCATTAGAAT
1 GTTGCTAGGTTAGAAGCCAGTAGAAT
*
242676 ATTGCTAG
1 GTTGCTAG
242684 CCTTTGCATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (26 bp):
GTTGCTAGGTTAGAAGCCAGTAGAAT
Found at i:247193 original size:23 final size:22
Alignment explanation
Indices: 247167--247209 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
247157 AATTTTTTGA
247167 TTTGACAAAAGGAGGAGAAATGC
1 TTTGA-AAAAGGAGGAGAAATGC
* *
247190 TTTGATAAAGGGGGAGAAAT
1 TTTGAAAAAGGAGGAGAAAT
247210 ATGTTTAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.42, C:0.05, G:0.33, T:0.21
Consensus pattern (22 bp):
TTTGAAAAAGGAGGAGAAATGC
Found at i:247825 original size:13 final size:13
Alignment explanation
Indices: 247807--247833 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
247797 ACATTATGCT
247807 TTGTATCGATACA
1 TTGTATCGATACA
247820 TTGTATCGATACA
1 TTGTATCGATACA
247833 T
1 T
247834 ATTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:247863 original size:20 final size:19
Alignment explanation
Indices: 247817--247873 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
247807 TTGTATCGAT
**
247817 ACATTGTATCGATACATAT
1 ACATTGTATCGATACATGG
*
247836 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
247855 ACAATTGTATTGATACATG
1 AC-ATTGTATCGATACATG
247874 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:247937 original size:13 final size:13
Alignment explanation
Indices: 247919--247971 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
247909 CGATACATGG
247919 TACATTGTATCGA
1 TACATTGTATCGA
247932 TACATTGTATCGA
1 TACATTGTATCGA
247945 TACA-TG-AT-G-
1 TACATTGTATCGA
247954 -A-ATTGTATCGA
1 TACATTGTATCGA
247965 TACATTG
1 TACATTG
247972 CTTGTAATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 21 0.62
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:247946 original size:33 final size:34
Alignment explanation
Indices: 247902--247971 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
247892 CTACCACTGT
*
247902 TTGTATTCGATACATGGT-ACATTGTATCGATACA
1 TTGTATTCGATACATGATGA-ATTGTATCGATACA
247936 TTGTA-TCGATACATGATGAATTGTATCGATACA
1 TTGTATTCGATACATGATGAATTGTATCGATACA
247969 TTG
1 TTG
247972 CTTGTAATGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 28 0.82
34 6 0.18
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (34 bp):
TTGTATTCGATACATGATGAATTGTATCGATACA
Found at i:248750 original size:19 final size:19
Alignment explanation
Indices: 248722--248777 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
248712 AGTATCGATA
*
248722 CATTGAATCGATACATGCT
1 CATTGTATCGATACATGCT
*
248741 CATTGTATCGATACATACT
1 CATTGTATCGATACATGCT
248760 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
248778 AAACTGGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:248840 original size:13 final size:13
Alignment explanation
Indices: 248822--248848 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
248812 GATACATGGG
248822 ACATTGTATCGAT
1 ACATTGTATCGAT
248835 ACATTGTATCGAT
1 ACATTGTATCGAT
248848 A
1 A
248849 TAACGTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:251429 original size:13 final size:13
Alignment explanation
Indices: 251411--251436 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
251401 TTTTCCAGAA
251411 TGTATCGATACAT
1 TGTATCGATACAT
251424 TGTATCGATACAT
1 TGTATCGATACAT
251437 GGGTTGCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:253948 original size:20 final size:19
Alignment explanation
Indices: 253897--253950 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
253887 GTATCGATAC
* *
253897 ATTATATCAATACATGCTT
1 ATTATATCAATACATACTA
*
253916 ATTGTATCAATACATACTCA
1 ATTATATCAATACATACT-A
*
253936 ATTATATCGATACAT
1 ATTATATCAATACAT
253951 GAAACTGGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (19 bp):
ATTATATCAATACATACTA
Found at i:254005 original size:20 final size:20
Alignment explanation
Indices: 253980--254032 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
253970 CTAAGTGAAA
*
253980 TGTATCGATACATG-GGACAT
1 TGTATCGATACATGAAGA-AT
254000 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAT
*
254020 TATATCGATACAT
1 TGTATCGATACAT
254033 TATGCCTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAT
Found at i:255287 original size:21 final size:20
Alignment explanation
Indices: 255240--255293 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
255230 TATTTCAAAC
255240 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
*
255260 ATGTATCTATACATTCACTT
1 ATGTATCGATACATTCACTT
255280 ATTGTATCGATACA
1 A-TGTATCGATACA
255294 AATTGTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:255494 original size:87 final size:86
Alignment explanation
Indices: 255345--255526 Score: 305
Period size: 87 Copynumber: 2.1 Consensus size: 86
255335 TCGATACGTT
255345 CAAGAAATGCATCGATACATTTAGAAAAAAAATGTGAGTTTTTCATTCTTTTTGCCTCCTAGACA
1 CAAGAAATGCATCGATACATTTAGAAAAAAAATGTGAGTTTTTCATTCTTTTTGCCTCCTAGACA
255410 CCTTATCTCAACTAAGG-TTGA
66 CCTTATCTCAACT-AGGTTTGA
*
255431 CAGGAGAAATGCATCGATACATTTAG-ATAAAAATGTGAGTTTTTCATTCTTTTTGCCTCCTAGA
1 CA--AGAAATGCATCGATACATTTAGAAAAAAAATGTGAGTTTTTCATTCTTTTTGCCTCCTAGA
*
255495 CACCTTATCTCGACTAGGTTTGA
64 CACCTTATCTCAACTAGGTTTGA
255518 CAAGAAATG
1 CAAGAAATG
255527 GATCTGTTCT
Statistics
Matches: 91, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
85 7 0.08
86 5 0.05
87 57 0.63
88 22 0.24
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (86 bp):
CAAGAAATGCATCGATACATTTAGAAAAAAAATGTGAGTTTTTCATTCTTTTTGCCTCCTAGACA
CCTTATCTCAACTAGGTTTGA
Found at i:258118 original size:32 final size:32
Alignment explanation
Indices: 258074--258138 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
258064 GCGTGACCAC
*
258074 TCACTAGTCTTTTAAAAAAAGGGCAATTCTAA
1 TCACTAGGCTTTTAAAAAAAGGGCAATTCTAA
258106 TCACTAGGCTTTTAAAAAAAGGGCAATTCTAA
1 TCACTAGGCTTTTAAAAAAAGGGCAATTCTAA
258138 T
1 T
258139 GGTTAGATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (32 bp):
TCACTAGGCTTTTAAAAAAAGGGCAATTCTAA
Found at i:262155 original size:21 final size:21
Alignment explanation
Indices: 262105--262155 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
262095 AAATCAATCT
262105 TGAAATTTTCATTTATTTTCA
1 TGAAATTTTCATTTATTTTCA
**
262126 TGAGTTTTTCATTT-TTTTCCA
1 TGAAATTTTCATTTATTTT-CA
*
262147 TTAAATTTT
1 TGAAATTTT
262156 TTTTTAAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.24, C:0.10, G:0.06, T:0.61
Consensus pattern (21 bp):
TGAAATTTTCATTTATTTTCA
Found at i:263002 original size:31 final size:30
Alignment explanation
Indices: 262962--263022 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
262952 AAAAACTTGG
*
262962 GAAAAAAAAGAGATAAAAAAATAAAGAAAAA
1 GAAAAAAAAGAGAGAAAAAAA-AAAGAAAAA
* *
262993 GAAAGAAAAGAGAGAAAAAAAATAGAAAAA
1 GAAAAAAAAGAGAGAAAAAAAAAAGAAAAA
263023 TTAGTTAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (30 bp):
GAAAAAAAAGAGAGAAAAAAAAAAGAAAAA
Found at i:263019 original size:11 final size:11
Alignment explanation
Indices: 262962--263022 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
262952 AAAAACTTGG
262962 GAAAAAAAAGA
1 GAAAAAAAAGA
*
262973 GATAAAAAAATA
1 GA-AAAAAAAGA
*
262985 -AAGAAAAAGA
1 GAAAAAAAAGA
*
262995 -AAGAAAAGAGA
1 GAA-AAAAAAGA
*
263006 GAAAAAAAATA
1 GAAAAAAAAGA
263017 GAAAAA
1 GAAAAA
263023 TTAGTTAACA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
10 9 0.22
11 21 0.52
12 10 0.25
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (11 bp):
GAAAAAAAAGA
Found at i:264193 original size:358 final size:356
Alignment explanation
Indices: 263538--264236 Score: 1254
Period size: 358 Copynumber: 2.0 Consensus size: 356
263528 AGTTTAAGGG
*
263538 TTGTTAGGATCTTGGTTTTGATATAACAAAGATTGAGTAAAACCGAAAAATGTTTAAAAAATCGT
1 TTGTTAGGATCTTGGTTTTGATATAACAAAGATTGAATAAAACCGAAAAATGTTTAAAAAATCGT
*
263603 AAATAAGTTTTATTCACTCAAAAACTCACAAAAAACATGTTCTAAGTAATTTTTTATCAATGGAA
66 AAACAAGTTTTATTCACTCAAAAACTCACAAAAAACATGTTCTAAGTAATTTTTTATCAATGGAA
* * *
263668 GTTTTTAGAGTTATAAACAAATGTTTTTGAACCTTAATTTAAATGTTTTTAAGACAAAAATACTT
131 GTTTTTAGAGTTATAAACAAATGTTTTTGAACCTTAATTTAAAAGTGTTTAAGACAAAAATACTC
* *
263733 CAAAGTATCGATACATAGGTATTTGTATCAATACATTATGGTTGACTTAGGCTACAAAGGTTAAA
196 CAAAGTATCGATACATAGGAATTTGTATCAATACATTATGGTTGACTTAGGCTACAAAGGTCAAA
263798 ACCCTTGAATGTATCGATACACACCCAGATGTATCGATACATTATGCTTTGTATCGATACATGTT
261 ACCCTTGAATGTATCGATACACACCCAGATGTATCGATACATTATGCTTTGTATCGATACATGTT
263863 AATTGTATCGATACATTGTATGGATACATGT
326 AATTGTATCGATACATTGTATGGATACATGT
* *
263894 TTGTTAGGATCTTGGTTTTGATATAACAAAGATTGAATAAAACCGGAAAATGTTTGAAAAATCGT
1 TTGTTAGGATCTTGGTTTTGATATAACAAAGATTGAATAAAACCGAAAAATGTTTAAAAAATCGT
* * *
263959 AAACAAGTTTTATTCACTCAAAAAACTCTCTAAAAACATGTTCTAAGTTATTTTTTTATCAATGG
66 AAACAAGTTTTATTCACTC-AAAAACTCACAAAAAACATGTTCTAAG-TAATTTTTTATCAATGG
*
264024 AAGTTTTTAGAGTTATAAACAAATGTTTTTGAACCTTAATTTAAAAGTGTTTAAGGCAAAAATAC
129 AAGTTTTTAGAGTTATAAACAAATGTTTTTGAACCTTAATTTAAAAGTGTTTAAGACAAAAATAC
264089 TCCAAAGTATCGATACATAGGAATTTGTATCAATACATTATGGTTGACTTAGGCTACAAAGGTCA
194 TCCAAAGTATCGATACATAGGAATTTGTATCAATACATTATGGTTGACTTAGGCTACAAAGGTCA
*
264154 AAACCCTTGAATGTATCGATACACACCCAGATGTATCGATACATTATGCTTTGTATCGATATATG
259 AAACCCTTGAATGTATCGATACACACCCAGATGTATCGATACATTATGCTTTGTATCGATACATG
264219 TTAATTGTATCGATACAT
324 TTAATTGTATCGATACAT
264237 GGACAATTGT
Statistics
Matches: 327, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
356 80 0.24
357 25 0.08
358 222 0.68
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (356 bp):
TTGTTAGGATCTTGGTTTTGATATAACAAAGATTGAATAAAACCGAAAAATGTTTAAAAAATCGT
AAACAAGTTTTATTCACTCAAAAACTCACAAAAAACATGTTCTAAGTAATTTTTTATCAATGGAA
GTTTTTAGAGTTATAAACAAATGTTTTTGAACCTTAATTTAAAAGTGTTTAAGACAAAAATACTC
CAAAGTATCGATACATAGGAATTTGTATCAATACATTATGGTTGACTTAGGCTACAAAGGTCAAA
ACCCTTGAATGTATCGATACACACCCAGATGTATCGATACATTATGCTTTGTATCGATACATGTT
AATTGTATCGATACATTGTATGGATACATGT
Found at i:265171 original size:20 final size:20
Alignment explanation
Indices: 265145--265198 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
265135 CTTCCACTGT
265145 TTGTATCGATACATGGTAT-AA
1 TTGTATCGATACAT-G-ATGAA
265166 -TGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
265185 TTGTATCGATACAT
1 TTGTATCGATACAT
265199 AGCTTGTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.06
19 3 0.10
20 26 0.84
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:273245 original size:42 final size:42
Alignment explanation
Indices: 273196--273279 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
273186 AAAGAGGGAG
273196 AGATATTGAAAATAAATAAATTTTTACAAAAAGGGGAAAATT
1 AGATATTGAAAATAAATAAATTTTTACAAAAAGGGGAAAATT
* *
273238 AGATATTGACAATAAATAAATTTTTACAAAAAGGGGAGAATT
1 AGATATTGAAAATAAATAAATTTTTACAAAAAGGGGAAAATT
273280 GCTTTAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.29
Consensus pattern (42 bp):
AGATATTGAAAATAAATAAATTTTTACAAAAAGGGGAAAATT
Found at i:273898 original size:13 final size:13
Alignment explanation
Indices: 273880--273904 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
273870 CATTATGCTT
273880 TGTATCGATACAA
1 TGTATCGATACAA
273893 TGTATCGATACA
1 TGTATCGATACA
273905 TGTTAATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:273934 original size:20 final size:20
Alignment explanation
Indices: 273889--273945 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
273879 TTGTATCGAT
273889 ACAA-TGTATCGATACAT-G
1 ACAATTGTATCGATACATGG
**
273907 TTAATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
273927 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
273946 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 2 0.06
19 13 0.39
20 18 0.55
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:274033 original size:14 final size:14
Alignment explanation
Indices: 273996--274034 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
273986 ATGGTACAAT
*
273996 GTATCGATACATTA
1 GTATCGATACATGA
*
274010 -TATTGATACATGA
1 GTATCGATACATGA
274023 GTATCGATACAT
1 GTATCGATACAT
274035 AGCTTGCAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (14 bp):
GTATCGATACATGA
Found at i:275299 original size:30 final size:32
Alignment explanation
Indices: 275258--275323 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 32
275248 ACGAAATAAA
*
275258 ATTTTTTAAAAAT-A-AACTAAATATCATTTT
1 ATTTCTTAAAAATCATAACTAAATATCATTTT
* *
275288 ATTTCTTAAAAATCATTATCTAAATATTATTTT
1 ATTTCTTAAAAATCA-TAACTAAATATCATTTT
275321 ATT
1 ATT
275324 AAATAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 12 0.40
31 1 0.03
33 17 0.57
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (32 bp):
ATTTCTTAAAAATCATAACTAAATATCATTTT
Found at i:277292 original size:2 final size:2
Alignment explanation
Indices: 277287--277317 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
277277 AATGTGTGTG
277287 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
277318 TCAAGATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:278487 original size:23 final size:24
Alignment explanation
Indices: 278450--278494 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
278440 AAAAGGTAAC
278450 TCCATAATCAGTCTTGCAACCTTT
1 TCCATAATCAGTCTTGCAACCTTT
*
278474 TCCAT-ATTAGTCTTGCAACCT
1 TCCATAATCAGTCTTGCAACCT
278495 GTAAGTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.24, C:0.29, G:0.09, T:0.38
Consensus pattern (24 bp):
TCCATAATCAGTCTTGCAACCTTT
Found at i:281353 original size:32 final size:34
Alignment explanation
Indices: 281299--281366 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 34
281289 TGATTAATGT
281299 TTTTGAAACATCTATCATTATTTATATCT-AATA
1 TTTTGAAACATCTATCATTATTTATATCTAAATA
*
281332 TTTTGAAACATC-ATCATTATTTATTTCTAAATA
1 TTTTGAAACATCTATCATTATTTATATCTAAATA
281365 TT
1 TT
281367 AGATGTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
32 15 0.45
33 18 0.55
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (34 bp):
TTTTGAAACATCTATCATTATTTATATCTAAATA
Found at i:287664 original size:276 final size:278
Alignment explanation
Indices: 287341--287853 Score: 781
Period size: 277 Copynumber: 1.9 Consensus size: 278
287331 TATTAGTTAT
* * *
287341 TTTTTTGTTTTCTCTTTTATTGACTTAATGTTTTTAACTACAAAATCATATTTAATTACTATTAA
1 TTTTTTGTTTTCTCTTCTATTGACTAAATGTTTTTAACTACAAAATCATATTTAATTACTATCAA
* *
287406 GTTAAA-TATAATTAAATAATATTCTAATTCAAATATATATGTTAAATATTTTTAACTTATTTCA
66 GTTAAACTATAATTAAATAATATTCTAATTCAAATATATATATTAAATATTTTAAACTTATTTCA
* * *
287470 ATGCA-AATTA-ATTCAATTCAATTATATATTAACTTTGATATTTATATATTATATTGTTTTTAT
131 A--CATAAATAGATTCAATTCAATTATATATTAACTTTGATATTAATATATTATATT-ATTTTAT
*
287533 TT-AAAATAAATAAAT-TTCCATTATTTAAAAAA-TTAATGATAAATATGTCCTTTTTAATTATT
193 TTAAAAATAAATAAATATT-CATTATTAAAAAAATTTAATGATAAATATGTCCTTTTTAATTATT
287595 AATTATTTATTTTTAATTTTTG
257 AATTATTTATTTTTAATTTTTG
*
287617 TTTTTTGTTTTCT-TTCTATTTGACTCAAAT-TTTTTAACTACAAAATCATCTTTAATTACTATC
1 TTTTTTGTTTTCTCTTCTA-TTGACT-AAATGTTTTTAACTACAAAATCATATTTAATTACTATC
*
287680 AAGTTAAACTATAATTAAATAATATTCTAATTCAAGTATATATATTAAATATTTTAAACTTATTT
64 AAGTTAAACTATAATTAAATAATATTCTAATTCAAATATATATATTAAATATTTTAAACTTATTT
* * *
287745 TAACATAAATAGGTTCAATTCAATTATATATTAATTTTGATATTAATATATTATATTATTTTATT
129 CAACATAAATAGATTCAATTCAATTATATATTAACTTTGATATTAATATATTATATTATTTTATT
*
287810 TAAAAATAAATAAATATTCATTATTAAAAAAATTTATTGATAAA
194 TAAAAATAAATAAATATTCATTATTAAAAAAATTTAATGATAAA
287854 AATATTGATT
Statistics
Matches: 214, Mismatches: 15, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
275 6 0.03
276 70 0.33
277 126 0.59
278 12 0.06
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.50
Consensus pattern (278 bp):
TTTTTTGTTTTCTCTTCTATTGACTAAATGTTTTTAACTACAAAATCATATTTAATTACTATCAA
GTTAAACTATAATTAAATAATATTCTAATTCAAATATATATATTAAATATTTTAAACTTATTTCA
ACATAAATAGATTCAATTCAATTATATATTAACTTTGATATTAATATATTATATTATTTTATTTA
AAAATAAATAAATATTCATTATTAAAAAAATTTAATGATAAATATGTCCTTTTTAATTATTAATT
ATTTATTTTTAATTTTTG
Found at i:287872 original size:18 final size:18
Alignment explanation
Indices: 287849--287894 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
287839 AAATTTATTG
**
287849 ATAAAAATATTGATTAAA
1 ATAAAAATATTGACAAAA
*
287867 ATAAAAA-ATAGACAAAA
1 ATAAAAATATTGACAAAA
287884 ATAAAAATATT
1 ATAAAAATATT
287895 TTATTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (18 bp):
ATAAAAATATTGACAAAA
Found at i:288684 original size:74 final size:73
Alignment explanation
Indices: 288505--288832 Score: 318
Period size: 74 Copynumber: 4.6 Consensus size: 73
288495 TATTAAAATT
* * *
288505 TTTTTAAAGTATTATTTATCTTTATTTGTAGAAGTTTAAAT-T-TATTTTTAGGTATAATTATAC
1 TTTTTAAAGTATAATTTATCTTTATTTGTAAAAGTTTAAATGTGT-TTTTTGGGTATAATTATAC
*
288568 GAGTTAAAA
65 GAGTTTAAA
* * * * *
288577 TTTGTAAGGTATAATTTATCTTTATTTATAAAAGTTTAAATGTGTTTTTTGGGTATACTTATATG
1 TTTTTAAAGTATAATTTATCTTTATTTGTAAAAGTTTAAATGTGTTTTTTGGGTATAATTATACG
288642 AGTTTAAA
66 AGTTTAAA
* * *
288650 TTTTTAATAGCATAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTTTGGGTATAATTATAC
1 TTTTTAA-AGTATAATTTATCTTTATTTGTAAAAGTTTAAATGTGTTTTTTGGGTATAATTATAC
*
288715 GAGTTTATA
65 GAGTTTAAA
** * * * * *
288724 TTTTTGATCGTA-AATTTAAT-TTAATTTTTAGAAA-TTTAAATTTG-TTTTTGGGT-TGA-CAT
1 TTTTT-AAAGTATAATTT-ATCTTTATTTGTA-AAAGTTTAAATGTGTTTTTTGGGTATAATTAT
288783 A--AGTTTAAA
63 ACGAGTTTAAA
** *
288792 TTTTTAGGGTATTATTTATCTTTATTTGTAGAAA-TTTAAAT
1 TTTTTAAAGTATAATTTATCTTTATTTGTA-AAAGTTTAAAT
288833 TTTTATTTAA
Statistics
Matches: 215, Mismatches: 33, Indels: 20
0.80 0.12 0.07
Matches are distributed among these distances:
67 6 0.03
68 35 0.16
70 3 0.01
71 2 0.01
72 45 0.21
73 52 0.24
74 71 0.33
75 1 0.00
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (73 bp):
TTTTTAAAGTATAATTTATCTTTATTTGTAAAAGTTTAAATGTGTTTTTTGGGTATAATTATACG
AGTTTAAA
Found at i:288770 original size:147 final size:140
Alignment explanation
Indices: 288505--288832 Score: 369
Period size: 147 Copynumber: 2.3 Consensus size: 140
288495 TATTAAAATT
* *
288505 TTTTTAAAGTATTATTTATCTTTATTTGTAGAAGTTTAAATTTATTTTTAGGTATAATTATACGA
1 TTTTTAAAGTATTATTTATCTTTATTTGTAAAAGTTTAAATGTATTTTTAGGTATAATTATACGA
* *
288570 GTTAAAATTTGTAAGGTATAATTTATCTTTATTTATAAAAGTTTAAATGTGTTTTTTGGGTAT-A
66 GTTAAAATTTGTAACGTATAATTTATCTTAATTTATAAAAGTTTAAATGTG-TTTTTGGGT-TGA
288634 CTTATATGAGTTTAAA
129 C--ATA--AGTTTAAA
* * * *
288650 TTTTTAATAGCATAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTTTGGGTATAATTATAC
1 TTTTTAA-AGTATTATTTATCTTTATTTGTAAAAGTTTAAATGTA-TTTTTAGGTATAATTATAC
* * * * * *
288715 GAGTTTATATTTTTGATCGTA-AATTTAAT-TTAATTTTTAGAAA-TTTAAATTTGTTTTTGGGT
64 GAGTTAAAATTTGT-AACGTATAATTT-ATCTTAATTTATA-AAAGTTTAAATGTGTTTTTGGGT
288777 TGACATAAGTTTAAA
126 TGACATAAGTTTAAA
**
288792 TTTTTAGGGTATTATTTATCTTTATTTGTAGAAA-TTTAAAT
1 TTTTTAAAGTATTATTTATCTTTATTTGTA-AAAGTTTAAAT
288833 TTTTATTTAA
Statistics
Matches: 157, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
141 26 0.17
142 17 0.11
144 3 0.02
145 8 0.05
146 43 0.27
147 51 0.32
148 9 0.06
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (140 bp):
TTTTTAAAGTATTATTTATCTTTATTTGTAAAAGTTTAAATGTATTTTTAGGTATAATTATACGA
GTTAAAATTTGTAACGTATAATTTATCTTAATTTATAAAAGTTTAAATGTGTTTTTGGGTTGACA
TAAGTTTAAA
Found at i:288997 original size:22 final size:22
Alignment explanation
Indices: 288969--289014 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
288959 TTATTTGAGG
*
288969 TACTATAATTTTGTTAATTATA
1 TACTATAATTTTATTAATTATA
288991 TACTATAATTTTATTAATTATA
1 TACTATAATTTTATTAATTATA
289013 TA
1 TA
289015 TTTAAGCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (22 bp):
TACTATAATTTTATTAATTATA
Found at i:291031 original size:13 final size:13
Alignment explanation
Indices: 291013--291038 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
291003 CAATTTTTTG
291013 TGTATCGATACAT
1 TGTATCGATACAT
291026 TGTATCGATACAT
1 TGTATCGATACAT
291039 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:291050 original size:32 final size:33
Alignment explanation
Indices: 290993--291056 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
290983 TACAAGCCAA
**
290993 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
291026 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
291057 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:291133 original size:20 final size:20
Alignment explanation
Indices: 291108--291160 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
291098 ACATCTTTTT
291108 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
291128 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
291148 CATGTATCGATAC
1 CATGTATCGATAC
291161 TTTGAATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:291778 original size:39 final size:40
Alignment explanation
Indices: 291700--291780 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 40
291690 TTCTTTTCTT
**
291700 TCTCTCTTAATTAAAGTAATTTTAACAAATTTGTACATTC
1 TCTCTCTTAATTAAAGTAATTTTAACAAATTTACACATTC
* *
291740 TCTCTCTTAA-T-AAGATAATTTTAGCAAATTTACGCATTC
1 TCTCTCTTAATTAAAG-TAATTTTAACAAATTTACACATTC
291779 TC
1 TC
291781 CCCTTTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 3 0.08
39 23 0.64
40 10 0.28
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.43
Consensus pattern (40 bp):
TCTCTCTTAATTAAAGTAATTTTAACAAATTTACACATTC
Found at i:294240 original size:84 final size:83
Alignment explanation
Indices: 294122--294295 Score: 201
Period size: 84 Copynumber: 2.1 Consensus size: 83
294112 CCAATTCATC
* * *
294122 ATTTTCCATTTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAAT-T-
1 ATTTT-CATTTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTC-TTTT-AAAGAATATC
*
294185 ATTTTCTAAACTCATTGATTT
63 ATTCTCTAAACTCATTGATTT
* * *
294206 ATTTTCATTTTGTAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTCTTTTCAAGAATATCA
1 ATTTTCA-TTTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTAAAGAATATCA
* *
294270 TTCTCTACACTTATTGATTT
64 TTCTCTAAACTCATTGATTT
294290 ATTTTC
1 ATTTTC
294296 TTCTTTGAGT
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
82 6 0.08
83 11 0.14
84 60 0.78
ACGTcount: A:0.25, C:0.18, G:0.03, T:0.53
Consensus pattern (83 bp):
ATTTTCATTTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTAAAGAATATCATT
CTCTAAACTCATTGATTT
Found at i:296465 original size:20 final size:20
Alignment explanation
Indices: 296442--296514 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
296432 ACAACTCAAA
296442 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
296462 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
296483 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
296503 GTATCGATACAT
1 GTATCGATACAT
296515 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:296493 original size:41 final size:42
Alignment explanation
Indices: 296442--296536 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
296432 ACAACTCAAA
*
296442 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
296483 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
296525 GTATCGATACAT
1 GTATCGATACAT
296537 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:296593 original size:13 final size:13
Alignment explanation
Indices: 296575--296600 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
296565 TACAGCAAGT
296575 ATGTATCGATACA
1 ATGTATCGATACA
296588 ATGTATCGATACA
1 ATGTATCGATACA
296601 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:300681 original size:15 final size:15
Alignment explanation
Indices: 300661--300699 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
300651 TAAAAATGTC
*
300661 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
300676 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
300691 CCAAATGAA
1 CAAAATGAA
300700 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:302793 original size:20 final size:21
Alignment explanation
Indices: 302715--302792 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
302705 ATGTCCAAAA
*
302715 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
302735 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
302759 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
302780 TGTATCGATACAT
1 TGTATCGATACAT
302793 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:302797 original size:13 final size:13
Alignment explanation
Indices: 302779--302817 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
302769 ACATTTTTTG
302779 TTGTATCGATACA
1 TTGTATCGATACA
302792 TTGTATCGATACA
1 TTGTATCGATACA
*
302805 CTGTATCGATACA
1 TTGTATCGATACA
302818 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:304643 original size:31 final size:31
Alignment explanation
Indices: 304608--304671 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
304598 TAAATTTTGA
304608 TATGAATTACTTGATTAAGGGGGAGATTTTT
1 TATGAATTACTTGATTAAGGGGGAGATTTTT
304639 TATGAATTACTTGATTAAGGGGGAGATTTTT
1 TATGAATTACTTGATTAAGGGGGAGATTTTT
304670 TA
1 TA
304672 ATAAACGGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.03, G:0.25, T:0.42
Consensus pattern (31 bp):
TATGAATTACTTGATTAAGGGGGAGATTTTT
Found at i:305314 original size:20 final size:20
Alignment explanation
Indices: 305291--305363 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
305281 ACAACTCAAA
305291 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
305311 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
305332 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
305352 GTATCGATACAT
1 GTATCGATACAT
305364 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:305342 original size:41 final size:42
Alignment explanation
Indices: 305291--305385 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
305281 ACAACTCAAA
*
305291 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
305332 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
305374 GTATCGATACAT
1 GTATCGATACAT
305386 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Done.