Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001563.1 Hibiscus syriacus cultivar Beakdansim tig00003096_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 849978
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:675548 original size:15 final size:14
Alignment explanation
Indices: 675530--675559 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
675520 GTTTCACACT
675530 TCTCAGCTTCAGCCG
1 TCTCAGCTTCA-CCG
675545 TCTCAGCTTCACCG
1 TCTCAGCTTCACCG
675559 T
1 T
675560 TGGATCTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.13, C:0.40, G:0.17, T:0.30
Consensus pattern (14 bp):
TCTCAGCTTCACCG
Found at i:676879 original size:15 final size:14
Alignment explanation
Indices: 676840--676887 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
676830 TCATTGTTTA
676840 TTTATAT-TTTAAT
1 TTTATATATTTAAT
* *
676853 TTTATATGTTTATT
1 TTTATATATTTAAT
676867 TTTAATATATTTAAT
1 TTT-ATATATTTAAT
676882 TATTAT
1 T-TTAT
676888 TACTATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 7 0.24
14 8 0.28
15 12 0.41
16 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTATATATTTAAT
Found at i:680550 original size:18 final size:17
Alignment explanation
Indices: 680519--680552 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
680509 TGGCCGTCTG
*
680519 TTTGGTTGGTTTTTGTT
1 TTTGGTTGGGTTTTGTT
680536 TTTGGTTTGGGTTTTGT
1 TTTGG-TTGGGTTTTGT
680553 GCTTTTGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (17 bp):
TTTGGTTGGGTTTTGTT
Found at i:685269 original size:13 final size:13
Alignment explanation
Indices: 685251--685275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
685241 TTGATGATGT
685251 GACATCACACATC
1 GACATCACACATC
685264 GACATCACACAT
1 GACATCACACAT
685276 TAATAGAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (13 bp):
GACATCACACATC
Found at i:686077 original size:54 final size:54
Alignment explanation
Indices: 686019--686287 Score: 350
Period size: 54 Copynumber: 5.1 Consensus size: 54
686009 CGTAGTGTCG
*
686019 ATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACACTTAGTG-CT
1 ATACGGTCGTTCATAAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCT
* *
686072 GATACGGTCGGTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCT
1 -ATACGGTCGTTCATAAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCT
* * * * *
686127 ATACAGTCATTCATAAACACATTATGAATTCCGTGTG-TG--CA-TTAGTGCCT
1 ATACGGTCGTTCATAAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCT
* * * *
686177 ATACGGTTGTTCATCAACATATGATGAGTTCCGTGGGTTGTACACTTAGTGCCT
1 ATACGGTCGTTCATAAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCT
* * * *
686231 ATATGGCCGTTCATAAACATATGATGAGTTCCGTGGGTTGCACATTTAGTGCCT
1 ATACGGTCGTTCATAAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCT
686285 ATA
1 ATA
686288 GTACACATAG
Statistics
Matches: 186, Mismatches: 24, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
50 38 0.20
51 4 0.02
53 4 0.02
54 138 0.74
55 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (54 bp):
ATACGGTCGTTCATAAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCT
Found at i:686202 original size:104 final size:107
Alignment explanation
Indices: 686019--686282 Score: 356
Period size: 104 Copynumber: 2.5 Consensus size: 107
686009 CGTAGTGTCG
686019 ATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACACTTAGTGCTGATACGGTCGGT
1 ATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTG-ACACTTAGTGCTGATACGGTCGGT
686084 CATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCT
65 CATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCT
* * * * * *
686127 ATACAGTCATTCATAAACACATTATGAATTCCGTGTG-TG-CA-TTAGTGCCT-ATACGGTTGTT
1 ATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGACACTTAGTG-CTGATACGGTCGGT
* *
686188 CATCAACATATGATGAGTTCCGTGGGTTGTACACTTAGTGCCT
65 CATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCT
* * * * *
686231 ATATGGCCGTTCATAAACATATGATGAGTTCCGTGGGTTGCACATTTAGTGC
1 ATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTG-ACACTTAGTGC
686283 CTATAGTACA
Statistics
Matches: 135, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
104 85 0.63
105 6 0.04
107 5 0.04
108 39 0.29
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (107 bp):
ATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGACACTTAGTGCTGATACGGTCGGTC
ATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCT
Found at i:688185 original size:3 final size:3
Alignment explanation
Indices: 688177--688225 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
688167 AATCAATTGT
688177 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
688225 T
1 T
688226 ATTCTAAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:692661 original size:21 final size:21
Alignment explanation
Indices: 692635--692677 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
692625 CGTTTTTCAC
692635 TTAACGATGTTATAAATAAAT
1 TTAACGATGTTATAAATAAAT
* *
692656 TTAACGGTGTTATAAATGAAT
1 TTAACGATGTTATAAATAAAT
692677 T
1 T
692678 ATTATATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.40
Consensus pattern (21 bp):
TTAACGATGTTATAAATAAAT
Found at i:696106 original size:62 final size:60
Alignment explanation
Indices: 696019--696187 Score: 184
Period size: 62 Copynumber: 2.8 Consensus size: 60
696009 ATATTATGAA
696019 ATATTTT-TATAGTATTTT-CTAAAATGGTATTTATATGATTTTGGGTAAGAAGTACCCAAT
1 ATATTTTATATAGTATTTTACT-AAATGG-ATTTATATGATTTTGGGTAAGAAGTACCCAAT
*** *
696079 ATAGTTTTATATAGTATTTTACTAAAT-GATTTATCAATGATTTTGGGTTTTAATTACCCAAT
1 ATA-TTTTATATAGTATTTTACTAAATGGATTTAT--ATGATTTTGGGTAAGAAGTACCCAAT
* * **
696141 ATATTTTATAT-GATATTTTACTACATGGATATGGATGATTTTGGGTA
1 ATATTTTATATAG-TATTTTACTAAATGGATTTATATGATTTTGGGTA
696188 TGAACTGTCC
Statistics
Matches: 93, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
60 22 0.24
61 25 0.27
62 44 0.47
63 2 0.02
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.47
Consensus pattern (60 bp):
ATATTTTATATAGTATTTTACTAAATGGATTTATATGATTTTGGGTAAGAAGTACCCAAT
Found at i:698658 original size:55 final size:55
Alignment explanation
Indices: 698152--698633 Score: 748
Period size: 55 Copynumber: 8.8 Consensus size: 55
698142 AATGACACTA
* * **
698152 TTTGTGTGGAAAACTAAGAAATTCATAATGAGTATATGAATTTATGTATGGGCAC
1 TTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCAC
* * *
698207 TTTGTGTACAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAAC
1 TTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCAC
* *
698262 TTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCTTATAGGCAC
1 TTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCAC
* *
698317 TTTGTGTGCAAAACTAAGAAATTCATAATGAATTTATGAATTTCCATATGGGCAC
1 TTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCAC
* * * *
698372 TTTGTGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCAGAATGGACAC
1 TTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCAC
*
698427 TTTGTGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCAC
1 TTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCAC
* **
698482 ATTGTGTGCAAAGTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCAC
1 TTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCAC
* *
698537 TTTGCGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCAC
1 TTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCAC
* * *
698592 TTTGTGTGCAAAACTAAGAAATTTATAATAAGTTTGTGAATT
1 TTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATT
698634 ATCATATTGG
Statistics
Matches: 393, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 393 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (55 bp):
TTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCAC
Found at i:700710 original size:2 final size:2
Alignment explanation
Indices: 700703--700748 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
700693 GATGTCAGAA
700703 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
700745 AT AT
1 AT AT
700749 TTTTTGGTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:704006 original size:55 final size:55
Alignment explanation
Indices: 703938--704412 Score: 706
Period size: 55 Copynumber: 8.6 Consensus size: 55
703928 AATGACATTA
* * *
703938 TTTGTGTGGAAAACTAAGAAATTCATAATGAGTATATGAATTTCTGTATGGGCAC
1 TTTGTGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCAC
* *
703993 TTTGTGTGCAAAACTAAGAAATTCATAATGAATTTATGAATTT-TCGTATGGGCAC
1 TTTGTGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCT-GTATGGGCAC
* * * * *
704048 TTTGTGTACAAAACTAAGAAATTTATAGTGAGTTTATGAATTTCCGTATGGGCAC
1 TTTGTGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCAC
* * *
704103 TTTGAGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGTGCAC
1 TTTGTGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCAC
* *
704158 TTTGTGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCAC
1 TTTGTGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCAC
*
704213 TTTGTGT-CTAAAGCTAATAAATTCATAATGAGTTTATGAATTT-TCGTATGGGCAC
1 TTTGTGTGC-AAAGCTAAGAAATTCATAATGAGTTTATGAATTTCT-GTATGGGCAC
704268 TTTGTGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCAC
1 TTTGTGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCAC
*
704323 TCTGTGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCT-TATGGGCAC
1 TTTGTGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTT-CTGTATGGGCAC
* * *
704378 TTTGTGTGCAAAACTAAGAAATTTATAATAAGTTT
1 TTTGTGTGCAAAGCTAAGAAATTCATAATGAGTTT
704413 GTGGATTATC
Statistics
Matches: 388, Mismatches: 25, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
54 2 0.01
55 382 0.98
56 4 0.01
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (55 bp):
TTTGTGTGCAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCAC
Found at i:705620 original size:11 final size:11
Alignment explanation
Indices: 705585--705623 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
705575 TATGAAACTA
705585 ATATAAT-ATT
1 ATATAATAATT
*
705595 ATAAAATAATT
1 ATATAATAATT
705606 ATATAATAATT
1 ATATAATAATT
705617 ATATAAT
1 ATATAAT
705624 TGTGACATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 6 0.23
11 20 0.77
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATAATAATT
Found at i:715379 original size:18 final size:16
Alignment explanation
Indices: 715347--715385 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
715337 TTTGTTCAGA
715347 AGAAG-AGGTTGGTTG
1 AGAAGAAGGTTGGTTG
715362 AGAAGAAGGTTGTCGTTG
1 AGAAGAAGGTTG--GTTG
715380 AGAAGA
1 AGAAGA
715386 CTCACGCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
18 10 0.48
ACGTcount: A:0.33, C:0.03, G:0.41, T:0.23
Consensus pattern (16 bp):
AGAAGAAGGTTGGTTG
Found at i:716203 original size:200 final size:200
Alignment explanation
Indices: 715949--716796 Score: 984
Period size: 199 Copynumber: 4.3 Consensus size: 200
715939 ATTTTTACCG
* * * * *
715949 TTACCTATTACTTTATAATTATTGGTATCGATGTTTTTTGGATCGATTCTTACAATAAATGTATC
1 TTACCTATTACTTTATAATTATCGGTTTCGATGGTTTTGGGATCGATACTTACAATAAATGTATC
*
716014 GATACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTATCTATACAATTTAAAA
66 GATACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTATCGATACAATTTAAAA
* *
716079 AAGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCGATATATTTTTATCGGTTACATTG
131 AAGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCGATATATTTTTACCGATTACATTG
716144 TAAAT
196 TAAAT
*
716149 TTACCTATTACTTTTTAATTATCGGTTTCGATGGTTTTGGGATCGATACTTACAATAAATGTATC
1 TTACCTATTACTTTATAATTATCGGTTTCGATGGTTTTGGGATCGATACTTACAATAAATGTATC
* *
716214 GATACTTTATGCGTGCACCTCGTTGGGCATTCATT-TGGACCAAAAGTAACGATACAATTTAAAG
66 GATACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTATCGATACAATTTAAAA
* * *
716278 AAGTATCGATACATTATGTTGACCTATTTTCTAATTAAACTGGTATATTTTTACCGATTACGTTG
131 AAGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCGATATATTTTTACCGATTACATTG
716343 TAAAT
196 TAAAT
* *
716348 TTACCTATTACTTTATAATTATCGGTTTCGAT-GTGTTTGGGATCGATACTTATATTAAATGTAT
1 TTACCTATTACTTTATAATTATCGGTTTCGATGGT-TTTGGGATCGATACTTACAATAAATGTAT
* * *
716412 CGACACTTTATGCGTGCACCTCATTGGGCATTCATTCTAGACCAAAAGTATCGATACATTATGTT
65 CGATACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTATCGATACA--AT-TT
* *** * * * * * * * *
716477 GACCTATTTTC--TA-ATTA----AACCGGTATATT-T--TT--ACCGGT-TACATTGTA--AAT
127 AAAAAAGTATCGATACATTATGTTGACC--TATTTTCTAATTAAACCGATATA-TTTTTACCGAT
*
716527 T---TTCCT--A-
189 TACATT-GTAAAT
* * ** * *
716534 TTA-C---T---TTATAATTATCAGTTTCAATGTATTTGGGATCGAAACTTACAATAAATGTATT
1 TTACCTATTACTTTATAATTATCGGTTTCGATGGTTTTGGGATCGATACTTACAATAAATGTATC
* *
716592 GATACTTTATGTGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTATCGATACAATTTTAAA
66 GATACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTATCGATACAATTTAAAA
* * * *
716657 AAGTATCGATACATTATGTTGACTTATTTTCTAATTAAACCGGTATAATTTTACCCG-CTACATT
131 AAGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCGATATATTTTTA-CCGATTACATT
716721 GTAAAT
195 GTAAAT
* *
716727 TTACCTATTACTTTATAATTATCGGTTTCGATGATTTTGGGATCGATTCTTACAATAAATGTATC
1 TTACCTATTACTTTATAATTATCGGTTTCGATGGTTTTGGGATCGATACTTACAATAAATGTATC
716792 GATAC
66 GATAC
716797 CTCAAGTTTG
Statistics
Matches: 543, Mismatches: 66, Indels: 78
0.79 0.10 0.11
Matches are distributed among these distances:
176 7 0.01
177 2 0.00
178 2 0.00
179 101 0.19
181 5 0.01
182 2 0.00
183 2 0.00
184 2 0.00
185 1 0.00
186 14 0.03
187 3 0.01
188 3 0.01
189 1 0.00
190 1 0.00
191 5 0.01
192 3 0.01
193 12 0.02
194 1 0.00
195 2 0.00
196 3 0.01
197 2 0.00
198 7 0.01
199 183 0.34
200 168 0.31
201 2 0.00
202 2 0.00
203 7 0.01
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (200 bp):
TTACCTATTACTTTATAATTATCGGTTTCGATGGTTTTGGGATCGATACTTACAATAAATGTATC
GATACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGACCAAAAGTATCGATACAATTTAAAA
AAGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCGATATATTTTTACCGATTACATTG
TAAAT
Found at i:716588 original size:179 final size:179
Alignment explanation
Indices: 716278--716648 Score: 607
Period size: 179 Copynumber: 2.1 Consensus size: 179
716268 CAATTTAAAG
* *
716278 AAGTATCGATACATTATGTTGACCTATTTTCTAATTAAACTGGTATATTTTTACCGATTACGTTG
1 AAGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCGGTATATTTTTACCGATTACATTG
* * * * * *
716343 TAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTGTTTGGGATCGATACTTATATTAAAT
66 TAAATTTACCTATTACTTTATAATTATCAGTTTCAATGTATTTGGGATCGAAACTTACAATAAAT
716408 GTATCGACACTTTATGCGTGCACCTCATTGGGCATTCATTCTAGACCAA
131 GTATCGACACTTTATGCGTGCACCTCATTGGGCATTCATTCTAGACCAA
*
716457 AAGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCGGTATATTTTTACCGGTTACATTG
1 AAGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCGGTATATTTTTACCGATTACATTG
*
716522 TAAATTTTCCTATTACTTTATAATTATCAGTTTCAATGTATTTGGGATCGAAACTTACAATAAAT
66 TAAATTTACCTATTACTTTATAATTATCAGTTTCAATGTATTTGGGATCGAAACTTACAATAAAT
* * * * *
716587 GTATTGATACTTTATGTGTGCACCTCGTTGGGCATTCATTCTGGACCAA
131 GTATCGACACTTTATGCGTGCACCTCATTGGGCATTCATTCTAGACCAA
716636 AAGTATCGATACA
1 AAGTATCGATACA
716649 ATTTTAAAAA
Statistics
Matches: 177, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
179 177 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (179 bp):
AAGTATCGATACATTATGTTGACCTATTTTCTAATTAAACCGGTATATTTTTACCGATTACATTG
TAAATTTACCTATTACTTTATAATTATCAGTTTCAATGTATTTGGGATCGAAACTTACAATAAAT
GTATCGACACTTTATGCGTGCACCTCATTGGGCATTCATTCTAGACCAA
Found at i:721270 original size:66 final size:64
Alignment explanation
Indices: 721140--721260 Score: 181
Period size: 66 Copynumber: 1.9 Consensus size: 64
721130 TAACCACCCC
*
721140 TTCACCCCTCAATTCCACAACTTCTTTCACCACTCCATCAATTTTTCCACCTGTCACTATCTTAA
1 TTCACCCCTCAACTCCACAACTTCTTTCACCACTCCATCAATTTTTCCACC--TCACTATCTTAA
721205 G
64 G
* **
721206 TTCACCCCTCAACTCCTCAACTTCTTTCACCACTCCATTTATTTTTCCACC-CACT
1 TTCACCCCTCAACTCCACAACTTCTTTCACCACTCCATCAATTTTTCCACCTCACT
721261 TCCCCCTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
63 4 0.08
66 47 0.92
ACGTcount: A:0.22, C:0.40, G:0.02, T:0.36
Consensus pattern (64 bp):
TTCACCCCTCAACTCCACAACTTCTTTCACCACTCCATCAATTTTTCCACCTCACTATCTTAAG
Found at i:723786 original size:183 final size:184
Alignment explanation
Indices: 723585--724100 Score: 842
Period size: 183 Copynumber: 2.8 Consensus size: 184
723575 GCGCTTTACC
*
723585 AGTTTTGTCATATTTTTACCTATTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATAC
1 AGTTTTGTCATATTTTTACCTGTTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATAC
*
723650 TTTATAGGCACTATTATTGCTTTTCTTTTAAATTCCAAAAGTGTAGATACTTATTTGAATAGAAT
66 TTTATAGGCACTATTATTGCTTTTCTTTTAAATTCCAAAAGTGTAGATACTTATTTGAATGGAAT
* * *
723715 CGATACCTTTAACATATCCGGTAGCGCTTTAGCGGTTTTGTCATTATGAAACCG
131 CGATACCTTCAACATATCCGGTAGCGATTTACCGGTTTTGTCATTATGAAACCG
* *
723769 -GTTTTGTCATATTTTTACCTGTTATATTGTTATGTATCGATACATGTTTATAAAGTACCGATGC
1 AGTTTTGTCATATTTTTACCTGTTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATAC
* * *
723833 TTTATAGGCGCTATTATTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTTAATGGAAT
66 TTTATAGGCACTATTATTGCTTTTCTTTTAAATTCCAAAAGTGTAGATACTTATTTGAATGGAAT
*
723898 CGATACCATTCAACATATCCGGTATCGATTTACCGGTTTTGTCATTATGAAACCG
131 CGATACC-TTCAACATATCCGGTAGCGATTTACCGGTTTTGTCATTATGAAACCG
723953 AG-TTTGTCATA-TTTTACCTGTTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATAC
1 AGTTTTGTCATATTTTTACCTGTTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATAC
* * * *
724016 TTTATAGGCTCTATTACTGTTTTTCTTTTAAATTTCAAAAGTGTCA-ATACTTATTTGAATGGAA
66 TTTATAGGCACTATTATTGCTTTTCTTTTAAATTCCAAAAGTGT-AGATACTTATTTGAATGGAA
*
724080 TCAATACCTTCAACATATCCG
130 TCGATACCTTCAACATATCCG
724101 ATATTTTCGG
Statistics
Matches: 309, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
182 13 0.04
183 243 0.79
184 52 0.17
185 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (184 bp):
AGTTTTGTCATATTTTTACCTGTTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATAC
TTTATAGGCACTATTATTGCTTTTCTTTTAAATTCCAAAAGTGTAGATACTTATTTGAATGGAAT
CGATACCTTCAACATATCCGGTAGCGATTTACCGGTTTTGTCATTATGAAACCG
Found at i:725066 original size:18 final size:18
Alignment explanation
Indices: 725045--725106 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
725035 TTCTATTTTA
725045 ATTTTAATTATTGTTAAT
1 ATTTTAATTATTGTTAAT
* *
725063 ATTTTATTTATT-TAAAT
1 ATTTTAATTATTGTTAAT
* * *
725080 -TTTTTAGTATTAGTTTAT
1 ATTTTAATTATT-GTTAAT
725098 ATTTTAATT
1 ATTTTAATT
725107 TCTATGATAT
Statistics
Matches: 32, Mismatches: 9, Indels: 5
0.70 0.20 0.11
Matches are distributed among these distances:
16 8 0.25
17 4 0.12
18 14 0.44
19 6 0.19
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
ATTTTAATTATTGTTAAT
Found at i:731057 original size:21 final size:21
Alignment explanation
Indices: 731028--731103 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
731018 ATTCTGACTA
731028 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
*
731049 TCGCGTTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
731070 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
731091 TCGCAATGCGATT
1 TCGCATTGCGATT
731104 ACGTAAATCG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:731116 original size:20 final size:20
Alignment explanation
Indices: 731091--731244 Score: 236
Period size: 20 Copynumber: 7.7 Consensus size: 20
731081 TTTTCCTAAT
731091 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
** *
731111 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCG-ATTACGTAAA
731132 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
*
731152 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGATTACGTAAA
731172 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
* *
731192 TCACAATGCGAATACGTAAA
1 TCGCAATGCGATTACGTAAA
731212 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
*
731232 TCGTAATGCGATT
1 TCGCAATGCGATT
731245 TACATAGCGC
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
20 103 0.86
21 17 0.14
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (20 bp):
TCGCAATGCGATTACGTAAA
Found at i:731444 original size:22 final size:22
Alignment explanation
Indices: 731419--731480 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 22
731409 GGCGACATCC
731419 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
731441 GTCCCCA----CGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* * *
731459 GTCTCCATCTCTGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
731481 TTCACGGTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
18 16 0.52
22 15 0.48
ACGTcount: A:0.26, C:0.37, G:0.16, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:731873 original size:20 final size:20
Alignment explanation
Indices: 731848--731897 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
731838 TGCGATTCTT
731848 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
731868 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
731888 GTGTTGCGAT
1 GCGTTGCGAT
731898 TTTTATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:731905 original size:20 final size:20
Alignment explanation
Indices: 731882--731919 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
731872 TGCGATAGTC
731882 ATTTTCGTGTTGCGATTTTT
1 ATTTTCGTGTTGCGATTTTT
731902 ATTTTCGTGTTGCGATTT
1 ATTTTCGTGTTGCGATTT
731920 AAAGTTTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.21, T:0.58
Consensus pattern (20 bp):
ATTTTCGTGTTGCGATTTTT
Found at i:731927 original size:20 final size:20
Alignment explanation
Indices: 731884--731927 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
731874 CGATAGTCAT
** *
731884 TTTCGTGTTGCGATTTTTAT
1 TTTCGTGTTGCGATTTAAAG
731904 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
731924 TTTC
1 TTTC
731928 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.11, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:733828 original size:20 final size:20
Alignment explanation
Indices: 733803--733946 Score: 165
Period size: 20 Copynumber: 7.5 Consensus size: 20
733793 AGAATAGTTT
733803 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
733823 ACTATCGCAATACGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
733843 ACTATCACAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
733859 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
733877 ACTATCGCAATGAGAAAATG
1 ACTATCGCAATGCGAAAATG
733897 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* * * **
733917 ATTATCGTAATGTGAATTTG
1 ACTATCGCAATGCGAAAATG
733937 ACTATCGCAA
1 ACTATCGCAA
733947 CGAAAGAATC
Statistics
Matches: 104, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
14 6 0.06
16 4 0.04
17 4 0.04
18 4 0.04
20 86 0.83
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:733873 original size:34 final size:34
Alignment explanation
Indices: 733826--733891 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
733816 GAAAATGACT
733826 ATCGCAATACGAAAATGACTATCACAACGAGAGA
1 ATCGCAATACGAAAATGACTATCACAACGAGAGA
* * *
733860 ATCGCAATGCGAAAATGACTATCGCAATGAGA
1 ATCGCAATACGAAAATGACTATCACAACGAGA
733892 AAATGACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.17
Consensus pattern (34 bp):
ATCGCAATACGAAAATGACTATCACAACGAGAGA
Found at i:734018 original size:20 final size:20
Alignment explanation
Indices: 733993--734166 Score: 151
Period size: 20 Copynumber: 9.3 Consensus size: 20
733983 GATTCTCTCG
**
733993 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
734013 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
734033 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
734053 TTGCGAT--T--TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
** *
734067 TTGCGATTTTTA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
734086 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
* *
734100 TTGCGATAGTCATTTTCTCG
1 TTGCGATAGTCATTTTCGCA
734120 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
734140 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
734160 TTGCGAT
1 TTGCGAT
734167 TTTAAGTTTT
Statistics
Matches: 130, Mismatches: 10, Indels: 28
0.77 0.06 0.17
Matches are distributed among these distances:
14 14 0.11
16 12 0.09
17 5 0.04
18 4 0.03
19 7 0.05
20 88 0.68
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.43
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:734051 original size:40 final size:35
Alignment explanation
Indices: 733974--734167 Score: 155
Period size: 40 Copynumber: 5.4 Consensus size: 35
733964 GAAATGAAAA
* * **
733974 TCGCATTGCGATTC-TCTCGTTGCGATAGTCAAAT
1 TCGCGTTGCGATTCTTTTCGTTGCGATAGTCATTT
*
734008 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
1 TCGCGTTGCGAT--TC-TTTTCG--TTGCGATAGTCATTT
** *
734048 TCGCGTTGCGATT-TTGTT-GTTGCGATTTTTA-TT
1 TCGCGTTGCGATTCTT-TTCGTTGCGATAGTCATTT
* *
734081 TCGCATTGCGATTC-TCTCGTTGCGATAGTCATTT
1 TCGCGTTGCGATTCTTTTCGTTGCGATAGTCATTT
*
734115 TCTCGTTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
1 TCGCGTTGCGAT--TC-TTTTCG--TTGCGATAGTCATTT
734155 TCGCGTTGCGATT
1 TCGCGTTGCGATT
734168 TTAAGTTTTA
Statistics
Matches: 128, Mismatches: 16, Indels: 28
0.74 0.09 0.16
Matches are distributed among these distances:
32 1 0.01
33 25 0.20
34 33 0.26
36 7 0.05
37 2 0.02
38 10 0.08
40 50 0.39
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (35 bp):
TCGCGTTGCGATTCTTTTCGTTGCGATAGTCATTT
Found at i:734107 original size:107 final size:107
Alignment explanation
Indices: 733974--734169 Score: 356
Period size: 107 Copynumber: 1.8 Consensus size: 107
733964 GAAATGAAAA
733974 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGCGA
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGCGA
734039 TAGTCATTTTCGCGTTGCGATTTTGTTGTTGCGATTTTTATT
66 TAGTCATTTTCGCGTTGCGATTTTGTTGTTGCGATTTTTATT
** * *
734081 TCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCTCGTTGCGATAGTCATTTTCGCATTGCGA
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGCGA
734146 TAGTCATTTTCGCGTTGCGATTTT
66 TAGTCATTTTCGCGTTGCGATTTT
734170 AAGTTTTAGA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 85 1.00
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.43
Consensus pattern (107 bp):
TCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGCGA
TAGTCATTTTCGCGTTGCGATTTTGTTGTTGCGATTTTTATT
Found at i:734737 original size:21 final size:21
Alignment explanation
Indices: 734646--734750 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
734636 GACTCACCTG
* *
734646 TCATCGTTTAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
734668 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
734688 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * *
734709 TCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
734730 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
734751 CCAACATTCT
Statistics
Matches: 64, Mismatches: 18, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 3 0.05
21 60 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:736129 original size:14 final size:14
Alignment explanation
Indices: 736110--736145 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
736100 ATTGTTTAAT
736110 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
736124 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
736138 TGATTTGT
1 TGATTTGT
736146 TTAATTGATG
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:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:736335 original size:34 final size:33
Alignment explanation
Indices: 736258--736342 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 33
736248 TCGCAACGAG
**
736258 GAAATGACTATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
* *
736291 GAAATGAAAATCGCAACGAGTGAATTGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
736324 GAAAATGAAAATCGCAACG
1 G-AAATGAAAATCGCAACG
736343 CGAAATTAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 30 0.64
34 17 0.36
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:736377 original size:20 final size:20
Alignment explanation
Indices: 736352--736512 Score: 78
Period size: 20 Copynumber: 8.7 Consensus size: 20
736342 GCGAAATTAG
*
736352 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATATTCAT
*
736372 TTTCGCATTGCG--ATTCA-
1 TTTCGCGTTGCGATATTCAT
* *
736389 ---CTCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATATTCAT
*
736405 TTTCGCATTGCG--ATTC--
1 TTTCGCGTTGCGATATTCAT
* *
736421 TCTC--GTTGCGATAGTCAT
1 TTTCGCGTTGCGATATTCAT
* * *
736439 TTCCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATATTCAT
* * *
736459 TTCCGCATTGCGATAGTCAT
1 TTTCGCGTTGCGATATTCAT
* * *
736479 TTCCGTGTTGCGATAGTCAT
1 TTTCGCGTTGCGATATTCAT
*
736499 ATTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
736513 TTTCGCGTTG
Statistics
Matches: 109, Mismatches: 21, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
14 12 0.11
16 10 0.09
17 3 0.03
18 6 0.06
19 7 0.06
20 71 0.65
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.40
Consensus pattern (20 bp):
TTTCGCGTTGCGATATTCAT
Found at i:736400 original size:34 final size:34
Alignment explanation
Indices: 736357--736452 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
736347 ATTAGTTTCG
736357 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
736391 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
736424 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
736453 AGTCAATTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:736481 original size:40 final size:40
Alignment explanation
Indices: 736426--736512 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
736416 GATTCTCTCG
736426 TTGCGATAGTCATTTCCGCGTTGCGATAGTCA-ATTCCGCA
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATT-CGCA
* *
736466 TTGCGATAGTCATTTCCGTGTTGCGATAGTCATATTCGCG
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCGCA
736506 TTGCGAT
1 TTGCGAT
736513 TTTCGCGTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 41 0.93
41 3 0.07
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCGCA
Found at i:736519 original size:14 final size:14
Alignment explanation
Indices: 736500--736526 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
736490 GATAGTCATA
736500 TTCGCGTTGCGATT
1 TTCGCGTTGCGATT
736514 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
736527 AGTCAAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.22, G:0.30, T:0.41
Consensus pattern (14 bp):
TTCGCGTTGCGATT
Found at i:738943 original size:24 final size:24
Alignment explanation
Indices: 738909--738962 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
738899 CTGGAAAATC
738909 ATCAAAATCCGAGTATTGAACAAG
1 ATCAAAATCCGAGTATTGAACAAG
* * *
738933 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGAACAAG
738957 ATCAAA
1 ATCAAA
738963 TTTTGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGAACAAG
Found at i:739799 original size:20 final size:20
Alignment explanation
Indices: 739776--739833 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
739766 TTGCGATAGT
* *
739776 CAGAATCTCGTTGCGATTCA
1 CAGAATCGCATTGCGATTCA
*
739796 CAGATTCGCATTGCGATTCA
1 CAGAATCGCATTGCGATTCA
*
739816 C-GTATTCGCATTGCGATT
1 CAG-AATCGCATTGCGATT
739834 TACGTATTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (20 bp):
CAGAATCGCATTGCGATTCA
Found at i:739838 original size:20 final size:20
Alignment explanation
Indices: 739786--739912 Score: 148
Period size: 20 Copynumber: 6.3 Consensus size: 20
739776 CAGAATCTCG
*
739786 TTGCGATTCACAG-ATTCGCA
1 TTGCGATTTAC-GTATTCGCA
*
739806 TTGCGATTCACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
739826 TTGCGATTTACGTATTCTCA
1 TTGCGATTTACGTATTCGCA
*
739846 TTGCGATTTACGTATTTGCA
1 TTGCGATTTACGTATTCGCA
* ** *
739866 TTGCGATTTTCCAAATTCGCG
1 TTGCGA-TTTACGTATTCGCA
*
739887 TTGCGATTTACGTATTCGTA
1 TTGCGATTTACGTATTCGCA
739907 TTGCGA
1 TTGCGA
739913 ATTAGGAAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
19 1 0.01
20 75 0.82
21 15 0.16
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:746663 original size:19 final size:21
Alignment explanation
Indices: 746624--746663 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
746614 ACAACAATAC
746624 CATAAATTAATTAAAATTTAT
1 CATAAATTAATTAAAATTTAT
*
746645 CATAAA-TAA-TAATATTTAT
1 CATAAATTAATTAAAATTTAT
746664 TAAGTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
CATAAATTAATTAAAATTTAT
Found at i:748141 original size:3 final size:3
Alignment explanation
Indices: 748133--748179 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
748123 AATTAATGGT
* *
748133 TAA TAA TAA AAA TAA TAA TTAA TAA TAA CAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
748178 TA
1 TA
748180 TAAATAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:748535 original size:134 final size:131
Alignment explanation
Indices: 748372--748720 Score: 427
Period size: 131 Copynumber: 2.6 Consensus size: 131
748362 GGTCGTTTTT
* * * *
748372 AGGGTGACATGGCTCCTACGTGATGAGGAGATTTGGTCGGTGGATGACACGGTTCCTATGTGATG
1 AGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGTTCCTATGTGATG
* ** * * * *
748437 AGGATGA-TTGAGTATCTTTAGGGATGATGATA-ACATGGTTCCTACGTGATGAGGATGACTGGT
66 AGGATGACATG-CCATCTTTAAGGATGAT-A-ACACA--GTTCCTACGTGATGAAGACGACTGAT
748500 TATCTA
126 TATCTA
* *
748506 GGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGTTCCTACGTGATG
1 AGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGTTCCTATGTGATG
* * *
748571 AGGACGACATGCCATCTTTAAGGATGATAACACAGTTCCTACGTGATGAAGACGACTTATTATGT
66 AGGATGACATGCCATCTTTAAGGATGATAACACAGTTCCTACGTGATGAAGACGACTGATTATCT
748636 A
131 A
* * * *
748637 AGGGTAACACGACTCTTACGTGATGAGTAGGTCTGGTTGGTGGATGACACGGTTCCTATG-GATG
1 AGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGTTCCTATGTGATG
*
748701 AGGATGGC-TGGCCATCTTTA
66 AGGATGACAT-GCCATCTTTA
748721 GAAATAATTT
Statistics
Matches: 188, Mismatches: 24, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
129 1 0.01
130 20 0.11
131 81 0.43
132 1 0.01
133 4 0.02
134 79 0.42
135 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (131 bp):
AGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGTTCCTATGTGATG
AGGATGACATGCCATCTTTAAGGATGATAACACAGTTCCTACGTGATGAAGACGACTGATTATCT
A
Found at i:748887 original size:65 final size:64
Alignment explanation
Indices: 748730--749049 Score: 324
Period size: 65 Copynumber: 5.0 Consensus size: 64
748720 AGAAATAATT
* * *
748730 TTTCAAGAGAAACCGTCTCAAGAGAGACAAAATTCATTTAAAGGGAAACGATCTCAAAGATAGGT
1 TTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATTCGTTTAAAGGGAAACGATCTCAAAGATA--T
748795 G
64 G
** *
748796 TTTCAAGAGAATTTGTCTCAAGAGAGAAAAAATTCGCTTAAAGGGAAACGA-CTCAAAGATGATT
1 TTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATTCGTTTAAAGGGAAACGATCTCAAAGAT-A-T
748860 G
64 G
* * * * * * *
748861 TCTCAAGAGAAACTGGCTAAACAGAGAAAAAATTTGTTTCAA-GGAAAC-AACTCAAAGATAATG
1 TTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATTCGTTTAAAGGGAAACGATCTCAAAGAT-ATG
* * * * * *
748924 TTTCGAGAGAAACTGTCCCAAGAGAGACAAAATTCGTTTCAAGGGAAATGATTTCAAAGATGATG
1 TTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATTCGTTTAAAGGGAAACGATCTCAAAGAT-ATG
* * * * * *
748989 TTTCAAGGGAAATTGTCTTAAGAGAGACAAAACTT-GTTTGAAGGGAAACAATCTCAAAGAT
1 TTTCAAGAGAAACTGTCTCAAGAGAGA-AAAAATTCGTTTAAAGGGAAACGATCTCAAAGAT
749050 TTTACGTTAA
Statistics
Matches: 209, Mismatches: 40, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
63 37 0.18
64 21 0.10
65 100 0.48
66 51 0.24
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.23
Consensus pattern (64 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATTCGTTTAAAGGGAAACGATCTCAAAGATATG
Found at i:748968 original size:128 final size:130
Alignment explanation
Indices: 748732--749049 Score: 363
Period size: 128 Copynumber: 2.4 Consensus size: 130
748722 AAATAATTTT
* * ** * *
748732 TCAAGAGAAACCGTCTCAAGAGAGACAAAATTCATTTAAAGGGAAACGATCTCAAAGATAGGTGT
1 TCAAGAGAAACTGTCTAAAGAGAGACAAAATTTGTTTAAAGGGAAAC-AACTCAAAGATAGATGT
** *
748797 TTCAAGAGAATTTGTCTCAAGAGAGAAAAAATTCGCTTAAAGGGAAACGA-CTCAAAGATGATTG
65 TTCAAGAGAAACTGTCCCAAGAGAGAAAAAATTCGCTTAAAGGGAAACGATCTCAAAGATGA-TG
748861 TC
129 TC
* * * *
748863 TCAAGAGAAACTGGCTAAACAGAGAAAAAATTTGTTTCAA-GGAAACAACTCAAAGATA-ATGTT
1 TCAAGAGAAACTGTCTAAAGAGAGACAAAATTTGTTTAAAGGGAAACAACTCAAAGATAGATGTT
* * * * * * *
748926 TCGAGAGAAACTGTCCCAAGAGAGACAAAATTCGTTTCAAGGGAAATGATTTCAAAGATGATGTT
66 TCAAGAGAAACTGTCCCAAGAGAGAAAAAATTCGCTTAAAGGGAAACGATCTCAAAGATGATGTC
* * * * *
748991 TCAAGGGAAATTGTCTTAAGAGAGACAAAACTTGTTTGAAGGGAAACAATCTCAAAGAT
1 TCAAGAGAAACTGTCTAAAGAGAGACAAAATTTGTTTAAAGGGAAACAA-CTCAAAGAT
749050 TTTACGTTAA
Statistics
Matches: 156, Mismatches: 28, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
128 80 0.51
129 29 0.19
130 15 0.10
131 32 0.21
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (130 bp):
TCAAGAGAAACTGTCTAAAGAGAGACAAAATTTGTTTAAAGGGAAACAACTCAAAGATAGATGTT
TCAAGAGAAACTGTCCCAAGAGAGAAAAAATTCGCTTAAAGGGAAACGATCTCAAAGATGATGTC
Found at i:749260 original size:37 final size:37
Alignment explanation
Indices: 749163--749290 Score: 156
Period size: 36 Copynumber: 3.6 Consensus size: 37
749153 TGTTCCGAGG
* *
749163 GAAAA-TGTCTCAAGTGAGACAAAATTTGTTTTGAGA
1 GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGA
*
749199 G-AAATTGTCTCAAGCAAGACAAAATTTGTTTTTAGA
1 GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGA
* * *
749235 GAAAATTGTTTTAAGCGAGATAAAATTTGTTTTTA-A
1 GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGA
* *
749271 GAAAACTGTCTCTAG-GAGAC
1 GAAAATTGTCTCAAGCGAGAC
749291 GACACTTTAT
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
35 7 0.09
36 42 0.54
37 29 0.37
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (37 bp):
GAAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAGA
Found at i:767554 original size:3 final size:3
Alignment explanation
Indices: 767546--767584 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
767536 AATTAATGGT
* *
767546 TAA TAA TAA TAA TAA TTAA TAA AAA AAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA
767585 GAAATAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:767575 original size:19 final size:20
Alignment explanation
Indices: 767547--767595 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
767537 ATTAATGGTT
767547 AATAATAATAATAATTAATA-A
1 AATAA-AATAATAA-TAATAGA
767568 AA-AAAATAATAATAATAGA
1 AATAAAATAATAATAATAGA
767587 AATAAAATA
1 AATAAAATA
767596 GACCCAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.19
19 11 0.42
20 8 0.31
21 2 0.08
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (20 bp):
AATAAAATAATAATAATAGA
Found at i:768016 original size:43 final size:42
Alignment explanation
Indices: 767885--768016 Score: 114
Period size: 43 Copynumber: 3.1 Consensus size: 42
767875 ACATGGTTCC
* * *
767885 TACGCGATGAGGATGTCTGGTTATCTAGGGGTGACACGACTCT
1 TACGTGATGAGGACGTCTGGTTATCTAAGGGTGACACG-CTCT
* *
767928 TACGTGATGAGG-CGGTCT-G--ATC--AGTGGATGACACGGTTCC
1 TACGTGATGAGGAC-GTCTGGTTATCTAAG-GG-TGACAC-GCTCT
*
767968 TACGTGATGAGGACGACTGGTTATCTAAGGGTGACACTGCTCT
1 TACGTGATGAGGACGTCTGGTTATCTAAGGGTGACAC-GCTCT
768011 TACGTG
1 TACGTG
768017 TTGAAGAGGT
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
38 1 0.01
39 2 0.03
40 26 0.37
41 3 0.04
42 1 0.01
43 33 0.47
44 2 0.03
45 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (42 bp):
TACGTGATGAGGACGTCTGGTTATCTAAGGGTGACACGCTCT
Found at i:768035 original size:83 final size:83
Alignment explanation
Indices: 767879--768070 Score: 251
Period size: 83 Copynumber: 2.3 Consensus size: 83
767869 ATGATAACAT
* * * * *
767879 GGTTCCTACGCGATGAGGATGTCTGGTTATCTAGGGGTGACACGACTCTTACGTGATGAGGCGGT
1 GGTTCCTACGCGATGAGGACGACTGGTTATCTAAGGGTGACACGACTCTTACGTGATGAAGAGGT
767944 CTGATCAGTGGATGACAC
66 CTGATCAGTGGATGACAC
* *
767962 GGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGGTGACACTG-CTCTTACGTGTTGAAGAGG
1 GGTTCCTACGCGATGAGGACGACTGGTTATCTAAGGGTGACAC-GACTCTTACGTGATGAAGAGG
* * *
768026 TTTGGTCAGTTGATGACAC
65 TCTGATCAGTGGATGACAC
* * *
768045 GATTCCTACGGGATGAGGACGGCTGG
1 GGTTCCTACGCGATGAGGACGACTGG
768071 CCATCTTTAG
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 94 0.99
84 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.27
Consensus pattern (83 bp):
GGTTCCTACGCGATGAGGACGACTGGTTATCTAAGGGTGACACGACTCTTACGTGATGAAGAGGT
CTGATCAGTGGATGACAC
Found at i:768197 original size:65 final size:65
Alignment explanation
Indices: 768086--768407 Score: 366
Period size: 64 Copynumber: 5.0 Consensus size: 65
768076 TTTAGGGATA
* * *
768086 ATGTTTCAAGAGAAATCGTCTCTAGAGAGACAAAATTTATTTCAAGGGAAACGATCTGAAAGATG
1 ATGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACGATCTCAAAGAT-
768151 G
65 G
* * *
768152 GTGTTTCAAGAGAAATTGTCTCAA-AAAGACAAAATTTATTTCAAGGGAAAAGA-CTCAAAGATG
1 ATGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACGATCTCAAAGATG
* * * *
768215 ATTGTTTCAAAAGAAATTGGCTCAAGAGAGACAAAA-TTAGTTTCAAGGAAAAC-AACTCAAAGA
1 A-TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTA-TTTCAAGGGAAACGATCTCAAAGA
768278 TG
64 TG
* * ** * *
768280 ATGTTTCGAGAGAAACTGTCTCAAGAGAGAC-AAATTCGTTTCAAGGGAAACTATCTCAAAGGTG
1 ATGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACGATCTCAAAGATG
* * * * * * * *
768344 ATGTTTCAAGGGAAACTATTTCAAGAGAGACAAAACTTGTTTCAATGGAAACAATCTCAAAGAT
1 ATGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACGATCTCAAAGAT
768408 TTTGCGTTAA
Statistics
Matches: 219, Mismatches: 30, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
63 16 0.07
64 97 0.44
65 85 0.39
66 21 0.10
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (65 bp):
ATGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACGATCTCAAAGATG
Found at i:768367 original size:15 final size:15
Alignment explanation
Indices: 768318--768368 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
768308 GACAAATTCG
768318 TTTCAAGGGAAACTA
1 TTTCAAGGGAAACTA
* * ** *
768333 TCTCAAAGGTGA-TG
1 TTTCAAGGGAAACTA
768347 TTTCAAGGGAAACTA
1 TTTCAAGGGAAACTA
768362 TTTCAAG
1 TTTCAAG
768369 AGAGACAAAA
Statistics
Matches: 25, Mismatches: 10, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (15 bp):
TTTCAAGGGAAACTA
Found at i:768433 original size:65 final size:63
Alignment explanation
Indices: 768086--768433 Score: 293
Period size: 65 Copynumber: 5.4 Consensus size: 63
768076 TTTAGGGATA
* * *
768086 ATGTTTCAAGAGAAA-TCGTCTCTAGAGAGACAAAATTTA-TTTCAAGGGAAACGATCTGAAAGA
1 ATGTTTCAAG-GAAACT-GTCTCAAGAGAGACAAAA-TTAGTTTCAA-GGAAACAATCTCAAAGA
768149 TGG
62 T-G
* * *
768152 GTGTTTCAAGAGAAATTGTCTCAA-AAAGACAAAATTTA-TTTCAAGGGAAA-AGA-CTCAAAGA
1 ATGTTTCAAG-GAAACTGTCTCAAGAGAGACAAAA-TTAGTTTCAA-GGAAACA-ATCTCAAAGA
768213 TG
62 TG
* * *
768215 ATTGTTTCAAAAGAAATTGGCTCAAGAGAGACAAAATTAGTTTCAAGGAAAACAA-CTCAAAGAT
1 A-TGTTTC-AAGGAAACTGTCTCAAGAGAGACAAAATTAGTTTCAAGG-AAACAATCTCAAAGAT
768279 G
63 G
* * * *
768280 ATGTTTCGAGAGAAACTGTCTCAAGAGAGAC-AAATTCGTTTCAAGGGAAACTATCTCAAAGGTG
1 ATGTTTCAAG-GAAACTGTCTCAAGAGAGACAAAATTAGTTTCAA-GGAAACAATCTCAAAGATG
* *
768344 ATGTTTCAAGGGAAACTATTTCAAGAGAGACAAAACTT-GTTTCAATGGAAACAATCTCAAAGAT
1 ATGTTTCAA-GGAAACTGTCTCAAGAGAGACAAAA-TTAGTTTCAA-GGAAACAATCTCAAAGAT
*
768408 T
63 G
* *
768409 TTGCGTT-AAGGAAGACTGTCTCAAG
1 ATG-TTTCAAGGAA-ACTGTCTCAAG
768434 TGATATAAAG
Statistics
Matches: 239, Mismatches: 27, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
63 19 0.08
64 96 0.40
65 98 0.41
66 25 0.10
67 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.26
Consensus pattern (63 bp):
ATGTTTCAAGGAAACTGTCTCAAGAGAGACAAAATTAGTTTCAAGGAAACAATCTCAAAGATG
Found at i:768594 original size:36 final size:36
Alignment explanation
Indices: 768504--768632 Score: 102
Period size: 36 Copynumber: 3.5 Consensus size: 36
768494 AACAAATTCG
* * * * *
768504 AAATTTGTGTTCTGAGGGAAAATGTCTCAAGTGAGACA
1 AAATTTGT-TT-TGAGAGAAATTTTCTCAAGGGAGAAA
768542 AAATTTGTTTTGAGAGAAATTTTCTCAAGGGAGATAA
1 AAATTTGTTTTGAGAGAAATTTTCTCAAGGGAGA-AA
* * * * *
768579 AAATTT-TTATT-AGAGAAAACTGTCTTAAGCGAGACA
1 AAATTTGTT-TTGAGAG-AAATTTTCTCAAGGGAGAAA
768615 AAATTTGTTTTGA-AGAAA
1 AAATTTGTTTTGAGAGAAA
768633 ACACTCTCTA
Statistics
Matches: 76, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
35 3 0.04
36 37 0.49
37 28 0.37
38 8 0.11
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.33
Consensus pattern (36 bp):
AAATTTGTTTTGAGAGAAATTTTCTCAAGGGAGAAA
Found at i:768633 original size:36 final size:36
Alignment explanation
Indices: 768521--768649 Score: 113
Period size: 36 Copynumber: 3.6 Consensus size: 36
768511 TGTTCTGAGG
*
768521 GAAAA-TGTCTCAAGTGAGACAAAATTTGTTTTG-A
1 GAAAACTGTCTCAAGCGAGACAAAATTTGTTTTGAA
* * * *
768555 GAGAAATTTTCTCAAGGGAGATAAAAATTT-TTATT-AGA
1 GA-AAACTGTCTCAAGCGAGA-CAAAATTTGTT-TTGA-A
*
768593 GAAAACTGTCTTAAGCGAGACAAAATTTGTTTTGAA
1 GAAAACTGTCTCAAGCGAGACAAAATTTGTTTTGAA
** *
768629 GAAAACACTCTCTAGCGAGAC
1 GAAAACTGTCTCAAGCGAGAC
768650 GACACTTTGT
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
34 2 0.03
35 3 0.04
36 41 0.55
37 26 0.35
38 3 0.04
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (36 bp):
GAAAACTGTCTCAAGCGAGACAAAATTTGTTTTGAA
Found at i:769854 original size:17 final size:16
Alignment explanation
Indices: 769834--769906 Score: 53
Period size: 17 Copynumber: 4.5 Consensus size: 16
769824 TGTCTTCTTC
769834 TTTTTTTTCTCTTTGCT
1 TTTTTTTTCTCTTT-CT
* *
769851 TTTTTCTTCT-TGTCT
1 TTTTTTTTCTCTTTCT
* *
769866 ATTTTTTTCTCTTTTT
1 TTTTTTTTCTCTTTCT
769882 TTCTTTCTTTC-CTTT-T
1 TT-TTT-TTTCTCTTTCT
769898 TTTATTTTT
1 TTT-TTTTT
769907 GCTTTGATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
15 14 0.31
16 11 0.24
17 16 0.36
18 4 0.09
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTTTTTCTCTTTCT
Found at i:769889 original size:32 final size:30
Alignment explanation
Indices: 769820--769900 Score: 87
Period size: 32 Copynumber: 2.7 Consensus size: 30
769810 TTGCATGTGC
769820 TTCTTGTCTTCTTCTTTTTTTTCTCTTTGCT
1 TTCTT-TCTTCTTCTTTTTTTTCTCTTTGCT
*
769851 TT-TTTCTTCTTGTCTATTTTTTTCTCTTT-TT
1 TTCTTTCTTC-T-TCT-TTTTTTTCTCTTTGCT
*
769882 TTCTTTCTT-TCCTTTTTTT
1 TTCTTTCTTCTTCTTTTTTT
769901 ATTTTTGCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
28 6 0.14
29 7 0.16
30 4 0.09
31 8 0.18
32 19 0.43
ACGTcount: A:0.01, C:0.20, G:0.04, T:0.75
Consensus pattern (30 bp):
TTCTTTCTTCTTCTTTTTTTTCTCTTTGCT
Found at i:776125 original size:53 final size:53
Alignment explanation
Indices: 776014--776130 Score: 162
Period size: 53 Copynumber: 2.2 Consensus size: 53
776004 ACATGATATT
* * *
776014 CGACCCGAACTGAATTTTCATAGAGTCAAACTAAAACCAAACCAAATCCGATA
1 CGACCCAAACTGAATTTTCATAAAATCAAACTAAAACCAAACCAAATCCGATA
* * ** *
776067 TGACCCAAACTGAATTTTCATAAAATCAAACTAAAACTAAACCAAATCTTATC
1 CGACCCAAACTGAATTTTCATAAAATCAAACTAAAACCAAACCAAATCCGATA
776120 CGACCCAAACT
1 CGACCCAAACT
776131 AAATCAAAAC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.44, C:0.26, G:0.08, T:0.21
Consensus pattern (53 bp):
CGACCCAAACTGAATTTTCATAAAATCAAACTAAAACCAAACCAAATCCGATA
Found at i:777065 original size:25 final size:25
Alignment explanation
Indices: 777016--777066 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
777006 TATGAGGGTG
* * *
777016 AATTTATTAAATTTTAGGGATGAAA
1 AATTTATTAAATTATAGGAACGAAA
777041 AATTTATTAAATTATAGGAACGAAA
1 AATTTATTAAATTATAGGAACGAAA
777066 A
1 A
777067 TACATTATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.35
Consensus pattern (25 bp):
AATTTATTAAATTATAGGAACGAAA
Found at i:781740 original size:25 final size:25
Alignment explanation
Indices: 781697--781745 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
781687 AAACCAATTC
**
781697 TTTCTTTTCTTTTCTTATTGTATTG
1 TTTCTTTTCTTTTAATATTGTATTG
*
781722 TTTCTTTTCTTTTAATATTTTATT
1 TTTCTTTTCTTTTAATATTGTATT
781746 TTTTGTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.12, C:0.10, G:0.04, T:0.73
Consensus pattern (25 bp):
TTTCTTTTCTTTTAATATTGTATTG
Found at i:782285 original size:66 final size:66
Alignment explanation
Indices: 782155--782285 Score: 154
Period size: 66 Copynumber: 2.0 Consensus size: 66
782145 TACACGGATC
* * * * * *
782155 TCATCGAGTGATCTTTGCAGTATTAAGTAATCACTCCACCTCTTGCACCAAAAAAATACCCAAGT
1 TCATCGAGTGATCTTTACAGTATTAACTAATCAATCCACCTCATGCACCAAAAAAACACACAAGT
782220 A
66 A
* * * * **
782221 TCATCGAGTGATCTTTACGGTATTCACTTATCAATCCACCTCATGCACCAGAAAGGCACACAAGT
1 TCATCGAGTGATCTTTACAGTATTAACTAATCAATCCACCTCATGCACCAAAAAAACACACAAGT
782286 TTCACCGAAC
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (66 bp):
TCATCGAGTGATCTTTACAGTATTAACTAATCAATCCACCTCATGCACCAAAAAAACACACAAGT
A
Found at i:788141 original size:65 final size:66
Alignment explanation
Indices: 787984--788147 Score: 208
Period size: 65 Copynumber: 2.5 Consensus size: 66
787974 TATCATATAG
* * * * * *
787984 TCACTCCGCCTCATG-ACCA-AAAGGTATAGGAGTCTCATCGAGTGATCTTTACAGTATCCAGTT
1 TCACTCCACCTTATGCACCACAAAGGTACACGAGTATCATCAAGTGATCTTTACAGTATCCAGTT
788047 A
66 A
* * *
788048 TCACTCCACCTTTTGCACCACAAAGGTACACGAGTATCATCAAGTGATCTTTATAGTATTCA-TT
1 TCACTCCACCTTATGCACCACAAAGGTACACGAGTATCATCAAGTGATCTTTACAGTATCCAGTT
788112 A
66 A
* *
788113 TCACTCCATCTTATGCACTACAAAGGTACACGAGT
1 TCACTCCACCTTATGCACCACAAAGGTACACGAGT
788148 CTTATAGAAC
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 12 0.14
65 39 0.45
66 35 0.41
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (66 bp):
TCACTCCACCTTATGCACCACAAAGGTACACGAGTATCATCAAGTGATCTTTACAGTATCCAGTT
A
Found at i:788162 original size:65 final size:65
Alignment explanation
Indices: 787984--788181 Score: 177
Period size: 65 Copynumber: 3.0 Consensus size: 65
787974 TATCATATAG
* * * * * * ** *
787984 TCACTCCGCCTCATG-ACCA-AAAGGTATAGGAGTCTCATCGAGTGATCTTTACAGTATCCAGTT
1 TCACTCCACCTTATGCACCACAAAGGTACACGAGTATCATCAAACGATCTTTACAGTATTCA-TT
788047 A
65 A
* ** *
788048 TCACTCCACCTTTTGCACCACAAAGGTACACGAGTATCATCAAGTGATCTTTATAGTATTCATTA
1 TCACTCCACCTTATGCACCACAAAGGTACACGAGTATCATCAAACGATCTTTACAGTATTCATTA
* * * * * *
788113 TCACTCCATCTTATGCACTACAAAGGTACACGAGTCTTAT-AGAACGATCTGTACAATATTCAAT
1 TCACTCCACCTTATGCACCACAAAGGTACACGAGTATCATCA-AACGATCTTTACAGTATTC-AT
788177 TA
64 TA
788179 TCA
1 TCA
788182 TCACTGACTC
Statistics
Matches: 111, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
64 13 0.12
65 56 0.50
66 42 0.38
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (65 bp):
TCACTCCACCTTATGCACCACAAAGGTACACGAGTATCATCAAACGATCTTTACAGTATTCATTA
Found at i:801485 original size:21 final size:20
Alignment explanation
Indices: 801459--801499 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
801449 GCATTGTATA
801459 TGAATTTAAAAGTTAGAATGT
1 TGAATTT-AAAGTTAGAATGT
* *
801480 TGAATTTGATGTTAGAATGT
1 TGAATTTAAAGTTAGAATGT
801500 AAAATTGGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (20 bp):
TGAATTTAAAGTTAGAATGT
Found at i:803483 original size:34 final size:34
Alignment explanation
Indices: 803424--803491 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
803414 GTGAAAGTAG
*
803424 CAGTATAGGAAAAAGAAACAATATAGAAAGTAAAA
1 CAGTATAAGAAAAAGAAACAATATAGAAAG-AAAA
* * *
803459 CAGTATAAG-AAAAGAAATAGTATAGTAAGAAAA
1 CAGTATAAGAAAAAGAAACAATATAGAAAGAAAA
803492 GATTGAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 4 0.14
34 17 0.59
35 8 0.28
ACGTcount: A:0.62, C:0.04, G:0.18, T:0.16
Consensus pattern (34 bp):
CAGTATAAGAAAAAGAAACAATATAGAAAGAAAA
Found at i:806875 original size:14 final size:14
Alignment explanation
Indices: 806836--806878 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
806826 TGCATATGTG
806836 TTCTATGTGAATAAA
1 TTCTATGTGAAT-AA
806851 TAATC-ATGTGAATAA
1 T--TCTATGTGAATAA
806866 TTCTATGTGAATA
1 TTCTATGTGAATA
806879 CTTATATGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 2 0.08
14 9 0.36
15 4 0.16
16 8 0.32
17 2 0.08
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.40
Consensus pattern (14 bp):
TTCTATGTGAATAA
Found at i:806886 original size:14 final size:14
Alignment explanation
Indices: 806839--806886 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
806829 ATATGTGTTC
*
806839 TATGTGAATAAATAA
1 TATGTGAAT-AATTA
*
806854 TCATGTGAATAATTC
1 T-ATGTGAATAATTA
*
806869 TATGTGAATACTTA
1 TATGTGAATAATTA
806883 TATG
1 TATG
806887 GTTAAACCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 15 0.54
15 5 0.18
16 8 0.29
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (14 bp):
TATGTGAATAATTA
Found at i:806984 original size:23 final size:22
Alignment explanation
Indices: 806950--807025 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
806940 GAGTCGAAGG
*
806950 TTCTACGCGGTTCTTCGGGATAA
1 TTCTACGCGGTTCTT-GGGACAA
* *
806973 TTCTACGTGGTTATTGAGGACAA
1 TTCTACGCGGTTCTTG-GGACAA
* *
806996 TTCTACACGGTCCTTTGGGACAA
1 TTCTACGCGGTTC-TTGGGACAA
*
807019 ATCTACG
1 TTCTACG
807026 TGGCACTTCA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
22 1 0.02
23 38 0.90
24 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (22 bp):
TTCTACGCGGTTCTTGGGACAA
Found at i:807053 original size:24 final size:24
Alignment explanation
Indices: 807016--807071 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
807006 TCCTTTGGGA
*
807016 CAAA-TCTACGTGGCACT-TCAGTG
1 CAAATTCTACATGGCA-TATCAGTG
*
807039 CATATTCTACATGGCATATCAGTG
1 CAAATTCTACATGGCATATCAGTG
807063 CAAATTCTA
1 CAAATTCTA
807072 TGCGACAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (24 bp):
CAAATTCTACATGGCATATCAGTG
Found at i:810710 original size:6 final size:6
Alignment explanation
Indices: 810701--810743 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
810691 CCAGAAAAAG
* * *
810701 AAATAA AAATAA AAATAA AAATAA AGATGA CAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A
810744 TTCATTATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:816961 original size:10 final size:10
Alignment explanation
Indices: 816946--816970 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
816936 TTCTTCAACC
816946 TCAAGTTCTT
1 TCAAGTTCTT
816956 TCAAGTTCTT
1 TCAAGTTCTT
816966 TCAAG
1 TCAAG
816971 GGAGATCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (10 bp):
TCAAGTTCTT
Found at i:831142 original size:19 final size:18
Alignment explanation
Indices: 831120--831158 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
831110 CCCGTTAACC
*
831120 TTGACCCAAACCGTTGACT
1 TTGA-CCAAACAGTTGACT
*
831139 TTGACCAAATAGTTGACT
1 TTGACCAAACAGTTGACT
831157 TT
1 TT
831159 CCCGTTGACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (18 bp):
TTGACCAAACAGTTGACT
Found at i:834435 original size:20 final size:21
Alignment explanation
Indices: 834396--834437 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
834386 AAGGCACACG
834396 ATACAAGACACTAGAGTGTAT
1 ATACAAGACACTAGAGTGTAT
*
834417 ATACAAGACACT-TAGTGTAT
1 ATACAAGACACTAGAGTGTAT
834437 A
1 A
834438 AGGTGGGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (21 bp):
ATACAAGACACTAGAGTGTAT
Found at i:843196 original size:29 final size:31
Alignment explanation
Indices: 843164--843233 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 31
843154 TTTTAACAAA
843164 TTATAATTTTTAAATA-TT-TTTTTATAATT
1 TTATAATTTTTAAATATTTCTTTTTATAATT
** *
843193 TTATAATTTTT-TCTATTTCTTTTTATATTT
1 TTATAATTTTTAAATATTTCTTTTTATAATT
843223 TTAT-ATTTTTA
1 TTATAATTTTTA
843234 TATTTTGCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 2 0.06
29 19 0.54
30 14 0.40
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (31 bp):
TTATAATTTTTAAATATTTCTTTTTATAATT
Found at i:843225 original size:8 final size:8
Alignment explanation
Indices: 843212--843239 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
843202 TTTCTATTTC
843212 TTTTTATA
1 TTTTTATA
843220 TTTTTATA
1 TTTTTATA
843228 TTTTTATA
1 TTTTTATA
843236 TTTT
1 TTTT
843240 GCTAAAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTATA
Done.