Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008056.1 Hibiscus syriacus cultivar Beakdansim tig00110551_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: 2370532
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 13
Found at i:600511 original size:8 final size:8
Alignment explanation
Indices: 600498--600537 Score: 80
Period size: 8 Copynumber: 5.0 Consensus size: 8
600488 TTACCGAAGA
600498 AGAGGGAG
1 AGAGGGAG
600506 AGAGGGAG
1 AGAGGGAG
600514 AGAGGGAG
1 AGAGGGAG
600522 AGAGGGAG
1 AGAGGGAG
600530 AGAGGGAG
1 AGAGGGAG
600538 GGAGAGGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (8 bp):
AGAGGGAG
Found at i:600540 original size:4 final size:4
Alignment explanation
Indices: 600499--600541 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
600489 TACCGAAGAA
* * * *
600499 GAGG GAGA GAGG GAGA GAGG GAGA GAGG GAGA GAGG GAGG GAG
1 GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAG
600542 AGGAAAACTC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (4 bp):
GAGG
Found at i:600540 original size:12 final size:12
Alignment explanation
Indices: 600499--600543 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
600489 TACCGAAGAA
600499 GAGGGAGAGAGG
1 GAGGGAGAGAGG
* * *
600511 GAGAGAGGGAGA
1 GAGGGAGAGAGG
600523 GAGGGAGAGAGG
1 GAGGGAGAGAGG
600535 GAGGGAGAG
1 GAGGGAGAG
600544 GAAAACTCTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (12 bp):
GAGGGAGAGAGG
Found at i:601442 original size:3 final size:3
Alignment explanation
Indices: 601434--601472 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
601424 AAATGTAAAT
*
601434 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TCA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
601473 AAAAGACCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:601770 original size:40 final size:40
Alignment explanation
Indices: 601709--601848 Score: 147
Period size: 40 Copynumber: 3.4 Consensus size: 40
601699 TATCTAAGGG
*
601709 TGACGCGACTCCTACGTGATGAGGAGATCTGGTCGGTGGA
1 TGACACGACTCCTACGTGATGAGGAGATCTGGTCGGTGGA
* * *** *
601749 TGACACGATTCCTACGTGATGAGGACATCTGGTTATCTAAGA
1 TGACACGACTCCTACGTGATGAGGAGATCTGG-TCGGT-GGA
*
601791 GTGACACTG-CTCCTATGTGATGAGGAGATCTGGTCGGTGGA
1 -TGACAC-GACTCCTACGTGATGAGGAGATCTGGTCGGTGGA
**
601832 TGACACGGTTCCTACGT
1 TGACACGACTCCTACGT
601849 TATAAGGATG
Statistics
Matches: 79, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
39 1 0.01
40 42 0.53
41 4 0.05
42 4 0.05
43 27 0.34
44 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.26
Consensus pattern (40 bp):
TGACACGACTCCTACGTGATGAGGAGATCTGGTCGGTGGA
Found at i:601811 original size:83 final size:83
Alignment explanation
Indices: 601668--601848 Score: 258
Period size: 83 Copynumber: 2.2 Consensus size: 83
601658 TTTAGAGATA
* * * * *
601668 ACACGTTTCTTACGTGATGAGGAATTTTGGCTATCTAAGGGTGACGCGACTCCTACGTGATGAGG
1 ACACGATTCCTACGTGATGAGGAATTCTGGCTATCTAAGAGTGACACGACTCCTACGTGATGAGG
601733 AGATCTGGTCGGTGGATG
66 AGATCTGGTCGGTGGATG
* *
601751 ACACGATTCCTACGTGATGAGGACA-TCTGGTTATCTAAGAGTGACACTG-CTCCTATGTGATGA
1 ACACGATTCCTACGTGATGAGGA-ATTCTGGCTATCTAAGAGTGACAC-GACTCCTACGTGATGA
601814 GGAGATCTGGTCGGTGGATG
64 GGAGATCTGGTCGGTGGATG
*
601834 ACACGGTTCCTACGT
1 ACACGATTCCTACGT
601849 TATAAGGATG
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
83 86 0.98
84 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (83 bp):
ACACGATTCCTACGTGATGAGGAATTCTGGCTATCTAAGAGTGACACGACTCCTACGTGATGAGG
AGATCTGGTCGGTGGATG
Found at i:602005 original size:138 final size:137
Alignment explanation
Indices: 601751--602155 Score: 517
Period size: 138 Copynumber: 2.9 Consensus size: 137
601741 TCGGTGGATG
* * *
601751 ACACGATTCCTACGTGATGAGGAC-ATCTGGTTATCTAAGAGTGACACTGCTCCTATGTGATGAG
1 ACACGATTCCTACGTGATGAGGACGA-CTGATTATCTAAGAGTGACA-TGATCCTACGTGATGAG
* * * **
601815 GAGATCTGGTCGGTGGATGACACGGTTCCTACGTTATAAGGATGGTTGGCCATCTTTAGGGATAA
64 GAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGACTGGCCATCTTTAGGGATAA
601880 AGGTAGATA
129 AGGTAGATA
* * * *
601889 ACATGGTTCCTACGTGATGAGGACGGCTGATTATCTAAGAGTGACATGGATCCTACATGATGAGG
1 ACACGATTCCTACGTGATGAGGACGACTGATTATCTAAGAGTGACAT-GATCCTACGTGATGAGG
* *
601954 AGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGACTAGCCATCTTTATGGATAAA
65 AGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGACTGGCCATCTTTAGGGATAAA
*
602019 TGTAGATA
130 GGTAGATA
* * * * * * *
602027 ACCCGATTCCTACATGATGAGGAAGATTGACTATCTAATGA-TGACACGACTTCTACGTGATGAG
1 ACACGATTCCTACGTGATGAGGACGACTGATTATCTAA-GAGTGACATGA-TCCTACGTGATGAG
* * * *
602091 GAGATCTGGTCGGTGGATAACACGATTCCTACGTGATGAGGACGACTGGCAATTTTTAGGGATAA
64 GAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGACTGGCCATCTTTAGGGATAA
602156 TTTTTTTTAT
Statistics
Matches: 231, Mismatches: 32, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
137 3 0.01
138 226 0.98
139 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (137 bp):
ACACGATTCCTACGTGATGAGGACGACTGATTATCTAAGAGTGACATGATCCTACGTGATGAGGA
GATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGACTGGCCATCTTTAGGGATAAAG
GTAGATA
Found at i:602216 original size:36 final size:36
Alignment explanation
Indices: 602176--602460 Score: 246
Period size: 36 Copynumber: 8.2 Consensus size: 36
602166 AGAGAAACGG
* *
602176 TCTCAAGCGAGACAAAATATGTTTCAAGGGAAACTG
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
* *
602212 TCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAA
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
**
602248 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAAAAA
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
* **** *
602284 TCTC-A-A-TG--TTTTTATGTTTCAAGAGAAACTA
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
**** * * * *
602315 TCTCAA-AG-G--TTTTTATGTTTCTAGAGAATCTG
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
* * * *
602347 TCTCGAGAGAAACAAAATATGTTTAAAGGGAAACTG
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
* *
602383 TCTCAAAAGAGACAAAATATGTTTCAAGGGAAACAA
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
* * *
602419 TCTAAAGAGAGATAAAATATGTTTCAAGGGAAACAA
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
602455 TCTCAA
1 TCTCAA
602461 TGCTTTTATG
Statistics
Matches: 206, Mismatches: 37, Indels: 12
0.81 0.15 0.05
Matches are distributed among these distances:
31 20 0.10
32 28 0.14
33 3 0.01
34 1 0.00
35 1 0.00
36 153 0.74
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (36 bp):
TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
Found at i:602303 original size:31 final size:32
Alignment explanation
Indices: 602265--602342 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 32
602255 AGAGACAAAA
* *
602265 TATGTTTCAAGGGAAAAAATCTC-AATGTTTT
1 TATGTTTCAAGAGAAAAAATCTCAAAGGTTTT
**
602296 TATGTTTCAAGAGAAACTATCTCAAAGGTTTT
1 TATGTTTCAAGAGAAAAAATCTCAAAGGTTTT
*
602328 TATGTTTCTAGAGAA
1 TATGTTTCAAGAGAA
602343 TCTGTCTCGA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 20 0.49
32 21 0.51
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (32 bp):
TATGTTTCAAGAGAAAAAATCTCAAAGGTTTT
Found at i:602450 original size:171 final size:171
Alignment explanation
Indices: 602166--602541 Score: 590
Period size: 171 Copynumber: 2.2 Consensus size: 171
602156 TTTTTTTTAT
* * * * * *
602166 AGAGAAACGGTCTCAAGCGAGACAAAATATGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 AGAGAAACTGTCTCAAGAGAAACAAAATATGTTTAAAGGGAAACTGTCTCAAAAGAGACAAAATA
* *
602231 TGTTTCAAGGGAAACAATCTCAAGAGAGACAAAATATGTTTCAAGGGAAAAAATCTCAATGTTTT
66 TGTTTCAAGGGAAACAATCTAAAGAGAGACAAAATATGTTTCAAGGGAAAAAATCTCAATGCTTT
* *
602296 TATGTTTCAAGAGAAACTATCTCAAAGGTTTTTATGTTTCT
131 TATGTTTCAAGAGAAAATATCTCAAAGGTTTTTATGTTTCC
* *
602337 AGAGAATCTGTCTCGAGAGAAACAAAATATGTTTAAAGGGAAACTGTCTCAAAAGAGACAAAATA
1 AGAGAAACTGTCTCAAGAGAAACAAAATATGTTTAAAGGGAAACTGTCTCAAAAGAGACAAAATA
* *
602402 TGTTTCAAGGGAAACAATCTAAAGAGAGATAAAATATGTTTCAAGGGAAACAATCTCAATGCTTT
66 TGTTTCAAGGGAAACAATCTAAAGAGAGACAAAATATGTTTCAAGGGAAAAAATCTCAATGCTTT
* *
602467 TATGTTTCAAGAGAAAATATCTCGAATGTTTTTATGTTTCC
131 TATGTTTCAAGAGAAAATATCTCAAAGGTTTTTATGTTTCC
* *
602508 AGAGAAACTGTCTTAAGAGAAACAAAATTTGTTT
1 AGAGAAACTGTCTCAAGAGAAACAAAATATGTTT
602542 TAAGATGAAC
Statistics
Matches: 185, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
171 185 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (171 bp):
AGAGAAACTGTCTCAAGAGAAACAAAATATGTTTAAAGGGAAACTGTCTCAAAAGAGACAAAATA
TGTTTCAAGGGAAACAATCTAAAGAGAGACAAAATATGTTTCAAGGGAAAAAATCTCAATGCTTT
TATGTTTCAAGAGAAAATATCTCAAAGGTTTTTATGTTTCC
Found at i:602474 original size:31 final size:33
Alignment explanation
Indices: 602436--602515 Score: 112
Period size: 32 Copynumber: 2.5 Consensus size: 33
602426 AGAGATAAAA
*
602436 TATGTTTCAAGGGAAACA-ATCTC-AATGCTTT
1 TATGTTTCAAGAGAAACATATCTCGAATGCTTT
*
602467 TATGTTTCAAGAGAAA-ATATCTCGAATGTTTT
1 TATGTTTCAAGAGAAACATATCTCGAATGCTTT
*
602499 TATGTTTCCAGAGAAAC
1 TATGTTTCAAGAGAAAC
602516 TGTCTTAAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 1 0.02
31 20 0.47
32 22 0.51
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (33 bp):
TATGTTTCAAGAGAAACATATCTCGAATGCTTT
Found at i:602765 original size:37 final size:36
Alignment explanation
Indices: 602681--602793 Score: 131
Period size: 37 Copynumber: 3.1 Consensus size: 36
602671 GACGAAATTA
* * *
602681 TCTCAAGCGAGTTC-AAATTTGTTTT-GAGGAAATTG
1 TCTCAAGCGAG-ACAAAATTTGTTTTAGAGAAAACTG
*
602716 TCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAACTG
1 TCTCAAGCGAGACAAAATTTG-TTTTAGAGAAAACTG
* *
602753 TCTCAAGCGAGACAAAATTTATTTTAAAGAAAAACTG
1 TCTCAAGCGAGACAAAATTTGTTTTAGAG-AAAACTG
602790 TCTC
1 TCTC
602794 TAGAGAGTCG
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
34 1 0.01
35 17 0.25
36 11 0.16
37 38 0.57
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (36 bp):
TCTCAAGCGAGACAAAATTTGTTTTAGAGAAAACTG
Found at i:602999 original size:3 final size:3
Alignment explanation
Indices: 602991--603036 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
602981 ATGTCATCCC
* * *
602991 ATT ATT ATT ATT ATT ATT ACT ACT ATT ATT ATT AAT A-T ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
603037 TTTAATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:605314 original size:131 final size:131
Alignment explanation
Indices: 605169--605477 Score: 402
Period size: 131 Copynumber: 2.4 Consensus size: 131
605159 GAATGGTAAT
* * * * * * *
605169 GTCATTTATTCTCGATTGAAAATAATTTGATATTGTCATTTTCTCTCGAATTAATATCGATTTTT
1 GTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATAGAATTTT
* * * * *
605234 TAGACGGAATATTAATATCTCTCTATTTCAATTGGAGTAATAAATGAATGTTTTAATGCACGAAA
66 AAGACGAAATAATAATATCTCTCTATTTCAATTGGAGTAATAAATGAATGTTTGAATGCACAAAA
605299 G
131 G
** * * * *
605300 GTTGTTTATTCTCGATTGGAAATCATTAGATATTATTATTTTCACTTGAATCGATATAGAATTTT
1 GTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATAGAATTTT
* * * *
605365 AAGATGAAATAATAATATCTCTTTATTTCAATTGGAGTAATGAATGACTGTTTGAATGCACAAAA
66 AAGACGAAATAATAATATCTCTCTATTTCAATTGGAGTAATAAATGAATGTTTGAATGCACAAAA
*
605430 T
131 G
*
605431 GTCATTTATTCTCGATTGGAAATAATTAGGTATTATCATTTTCACTC
1 GTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTC
605478 TTAAAATTAT
Statistics
Matches: 149, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
131 149 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (131 bp):
GTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATAGAATTTT
AAGACGAAATAATAATATCTCTCTATTTCAATTGGAGTAATAAATGAATGTTTGAATGCACAAAA
G
Found at i:626078 original size:112 final size:110
Alignment explanation
Indices: 625881--626157 Score: 358
Period size: 112 Copynumber: 2.5 Consensus size: 110
625871 CAGATCTGAC
* *
625881 ATTCCCTTAGAAGAAGCGAAACAGATCCCTCTCTTCCAAGATTTGAGATTCCCTGAGTGACAGCG
1 ATTCCCTTAGAAGAAGCG-AACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGACAACG
* * * *
625946 GAACAAGTTTACCCCGATTCATTAGATCAACTCCCCCCATATATGAT
65 GAACAAGTTCACACCGATTCAATAGATCAACTCCCCCC-GATATGAT
* * *
625993 ATTCCCTTAGAATAAGCGTAACAGATCTCTCTCTTCCAAGATTTGATATTCCCTGAGTGACAATG
1 ATTCCCTTAGAAGAAGCG-AACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGACAACG
* * * *
626058 GAACAAG-TCAGGATCGATTCAATGGATCAACTCCCCCCGATCTGAT
65 GAACAAGTTCA-CACCGATTCAATAGATCAACTCCCCCCGATATGAT
** *
626104 ATTCCCTTAGAAGAATTAGAACATATCCCTCTCTTCCAAGATTTGATATTCCCT
1 ATTCCCTTAGAAGAA-GCGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCT
626158 TAGAAGAAGT
Statistics
Matches: 144, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
111 55 0.38
112 89 0.62
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (110 bp):
ATTCCCTTAGAAGAAGCGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGACAACGG
AACAAGTTCACACCGATTCAATAGATCAACTCCCCCCGATATGAT
Found at i:626173 original size:47 final size:47
Alignment explanation
Indices: 626100--626204 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
626090 CCCCCCGATC
* * *
626100 TGATATTCCCTTAGAAGAATTAGAACATATCCCTCTCTTCCAAGATT
1 TGATATTCCCTTAGAAGAAGTAGAACATATCACTCTATTCCAAGATT
*
626147 TGATATTCCCTTAGAAGAAGTGGAACATATCACTCTATTCCAAGATT
1 TGATATTCCCTTAGAAGAAGTAGAACATATCACTCTATTCCAAGATT
626194 TGATATTCCCT
1 TGATATTCCCT
626205 GAGTGACAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (47 bp):
TGATATTCCCTTAGAAGAAGTAGAACATATCACTCTATTCCAAGATT
Found at i:626219 original size:47 final size:47
Alignment explanation
Indices: 626100--626220 Score: 145
Period size: 47 Copynumber: 2.6 Consensus size: 47
626090 CCCCCCGATC
* *** * *
626100 TGATATTCCCTTAGAAGAATTAGAACATATCCCTCTCTTCCAAGATT
1 TGATATTCCCTGAGAAGAAGCGGAACATATCACTCTATTCCAAGATT
* *
626147 TGATATTCCCTTAGAAGAAGTGGAACATATCACTCTATTCCAAGATT
1 TGATATTCCCTGAGAAGAAGCGGAACATATCACTCTATTCCAAGATT
*
626194 TGATATTCCCTGAG-TGACAGCGGAACA
1 TGATATTCCCTGAGAAGA-AGCGGAACA
626221 AGTCTGCCCC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 2 0.03
47 64 0.97
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (47 bp):
TGATATTCCCTGAGAAGAAGCGGAACATATCACTCTATTCCAAGATT
Found at i:626284 original size:158 final size:158
Alignment explanation
Indices: 625989--626315 Score: 440
Period size: 158 Copynumber: 2.1 Consensus size: 158
625979 CCCCCATATA
* * * *
625989 TGATATTCCCTTAGAATAAGCGTAACAGATCTCTCTCTTCCAAGATTTGATATTCCCTGAGTGAC
1 TGATATTCCCTTAGAAGAAGCGGAACAGATCACTCTATTCCAAGATTTGATATTCCCTGAGTGAC
* * * * *
626054 AATGGAACAAGTCAGGATCGATTCAATGGATCAACTCCCCCCGATCTGATATTCCCTTAGAAGAA
66 AACGGAACAAGTCAGCACCGATTCAATGGATCAACTCCCCCAGATATGATATTCCCTTAGAAGAA
** * *
626119 TTAGAACATATCCCTCTCTTCCAAGATT
131 GCAGAACATATCACTCTCTTCAAAGATT
* *
626147 TGATATTCCCTTAGAAGAAGTGGAACATATCACTCTATTCCAAGATTTGATATTCCCTGAGTGAC
1 TGATATTCCCTTAGAAGAAGCGGAACAGATCACTCTATTCCAAGATTTGATATTCCCTGAGTGAC
* * * * * *
626212 AGCGGAACAAGTCTGCCCCGA-TCAATGGATTAACTCCCACCATATATGATTTTCCCTTAGAAGA
66 AACGGAACAAGTCAGCACCGATTCAATGGATCAACTCCC-CCAGATATGATATTCCCTTAGAAGA
*
626276 AGCGGAACATATCACTCTCTTCAAAGATT
130 AGCAGAACATATCACTCTCTTCAAAGATT
626305 TGATATTCCCT
1 TGATATTCCCT
626316 GAGTGACAGC
Statistics
Matches: 146, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
157 16 0.11
158 130 0.89
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (158 bp):
TGATATTCCCTTAGAAGAAGCGGAACAGATCACTCTATTCCAAGATTTGATATTCCCTGAGTGAC
AACGGAACAAGTCAGCACCGATTCAATGGATCAACTCCCCCAGATATGATATTCCCTTAGAAGAA
GCAGAACATATCACTCTCTTCAAAGATT
Found at i:626361 original size:269 final size:270
Alignment explanation
Indices: 625872--626426 Score: 806
Period size: 269 Copynumber: 2.1 Consensus size: 270
625862 TTTAACCTAC
* * * *
625872 AGATCTGACATTCCCTTAGAAGAAGCGAAACAGATCCCTCTCTTCCAAGATTTGAGATTCCCTGA
1 AGATTTGATATTCCCTTAGAAGAAGCGAAACAGATCACTCTATTCCAAGATTTGAGATTCCCTGA
* * *
625937 GTGACAGCGGAACAAGTTTACCCCGATTCATTAGATCAACTCCCCCCATATATGATATTCCCTTA
66 GTGACAGCGGAACAAGTCTACCCCGATTCAATAGATCAACTCCCACCATATATGATATTCCCTTA
* * * * *
626002 GAATAAGCGTAACAGATCTCTCTCTTCCAAGATTTGATATTCCCTGAGTGACAATGGAACAAGTC
131 GAAGAAGCGGAACAGATCACTCTCTTCAAAGATTTGATATTCCCTGAGTGACAACGGAACAAGTC
* * * **
626067 AGGATCGATTCAATGGATCAACTCCCCCCGATCTGATATTCCCTTAGAAGAATTAGAACATATCC
196 AGCACCGATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCAGAACATATCC
626132 CTCTCTTCCA
261 CTCTCTTCCA
* * * *
626142 AGATTTGATATTCCCTTAGAAGAAGTGGAACATATCACTCTATTCCAAGATTTGATATTCCCTGA
1 AGATTTGATATTCCCTTAGAAGAAGCGAAACAGATCACTCTATTCCAAGATTTGAGATTCCCTGA
* * * *
626207 GTGACAGCGGAACAAGTCTGCCCCGA-TCAATGGATTAACTCCCACCATATATGATTTTCCCTTA
66 GTGACAGCGGAACAAGTCTACCCCGATTCAATAGATCAACTCCCACCATATATGATATTCCCTTA
* *
626271 GAAGAAGCGGAACATATCACTCTCTTCAAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTC
131 GAAGAAGCGGAACAGATCACTCTCTTCAAAGATTTGATATTCCCTGAGTGACAACGGAACAAGTC
* * * *
626336 TGCCCCTATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCAGAACATATTC
196 AGCACCGATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCAGAACATATCC
626401 CTCTCTTCCA
261 CTCTCTTCCA
* *
626411 ATATTTTATATTCCCT
1 AGATTTGATATTCCCT
626427 GAGTGACAGC
Statistics
Matches: 252, Mismatches: 33, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
269 171 0.68
270 81 0.32
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (270 bp):
AGATTTGATATTCCCTTAGAAGAAGCGAAACAGATCACTCTATTCCAAGATTTGAGATTCCCTGA
GTGACAGCGGAACAAGTCTACCCCGATTCAATAGATCAACTCCCACCATATATGATATTCCCTTA
GAAGAAGCGGAACAGATCACTCTCTTCAAAGATTTGATATTCCCTGAGTGACAACGGAACAAGTC
AGCACCGATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCAGAACATATCC
CTCTCTTCCA
Found at i:626378 original size:111 final size:111
Alignment explanation
Indices: 626142--626457 Score: 474
Period size: 111 Copynumber: 2.8 Consensus size: 111
626132 CTCTCTTCCA
* * *
626142 AGATTTGATATTCCCTTAGAAGAAGTGGAACATATCACTCTATTCCAAGATTTGATATTCCCTGA
1 AGATATGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTGA
*
626207 GTGACAGCGGAACAAGTCTGCCCCGATCAATGGATTAACTCCCACC
66 GTGACAGCGGAACAAGTCTGCCCCGATCAATGGATCAACTCCCACC
* * *
626253 ATATATGATTTTCCCTTAGAAGAAGCGGAACATATCACTCTCTTCAAAGATTTGATATTCCCTGA
1 AGATATGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTGA
*
626318 GTGACAGCGGAACAAGTCTGCCCCTATTCAATGGATCAACTCCC-CC
66 GTGACAGCGGAACAAGTCTGCCCCGA-TCAATGGATCAACTCCCACC
* * * *
626364 AGATCTGATATTCCCTTAGAAGAAGCAGAACATATTC-CTCTCTTCCAATATTTTATATTCCCTG
1 AGATATGATATTCCCTTAGAAGAAGCGGAACATA-TCACTCTCTTCCAAGATTTGATATTCCCTG
*
626428 AGTGACAGCGGAACAAGTCTACCCCAGATC
65 AGTGACAGCGGAACAAGTCTGCCCC-GATC
626458 TGATATTCCC
Statistics
Matches: 185, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
111 166 0.90
112 19 0.10
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (111 bp):
AGATATGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTGA
GTGACAGCGGAACAAGTCTGCCCCGATCAATGGATCAACTCCCACC
Found at i:626630 original size:3 final size:3
Alignment explanation
Indices: 626624--626670 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
626614 CCGTTATTAT
626624 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
626671 TTATTATTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:628761 original size:11 final size:11
Alignment explanation
Indices: 628745--628769 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
628735 TAATTAATTG
628745 TGTTTGCTTGA
1 TGTTTGCTTGA
628756 TGTTTGCTTGA
1 TGTTTGCTTGA
628767 TGT
1 TGT
628770 ATGTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.28, T:0.56
Consensus pattern (11 bp):
TGTTTGCTTGA
Found at i:634434 original size:28 final size:28
Alignment explanation
Indices: 634392--634452 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
634382 AACAAACATA
634392 GCATAATATACAAACTAGTGACTTAAAT
1 GCATAATATACAAACTAGTGACTTAAAT
*
634420 GCATAATATATAAACTAGTGACTTAAAT
1 GCATAATATACAAACTAGTGACTTAAAT
634448 GCATA
1 GCATA
634453 TATTGAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (28 bp):
GCATAATATACAAACTAGTGACTTAAAT
Found at i:634779 original size:11 final size:9
Alignment explanation
Indices: 634754--634781 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
634744 GAGAGGGAGA
634754 AACTCTCTC
1 AACTCTCTC
634763 AACTCTCTC
1 AACTCTCTC
634772 AACTCTCTC
1 AACTCTCTC
634781 A
1 A
634782 TCTTCTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.25, C:0.43, G:0.00, T:0.32
Consensus pattern (9 bp):
AACTCTCTC
Found at i:643607 original size:13 final size:13
Alignment explanation
Indices: 643589--643655 Score: 71
Period size: 13 Copynumber: 5.0 Consensus size: 13
643579 GACTTTTTGA
643589 TCAAAGTCAACGG
1 TCAAAGTCAACGG
**
643602 TCAAAGTCAACTA
1 TCAAAGTCAACGG
*
643615 TCAGAGTCAACGTG
1 TCAAAGTCAACG-G
*
643629 TCAAAGTCAATGGG
1 TCAAAGTCAA-CGG
*
643643 TCAAATTCAACGG
1 TCAAAGTCAACGG
643656 GTTGACTCGA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
13 23 0.53
14 19 0.44
15 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (13 bp):
TCAAAGTCAACGG
Found at i:643624 original size:26 final size:27
Alignment explanation
Indices: 643588--643638 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
643578 TGACTTTTTG
643588 ATCAAAGTCAACG-GTCAAAGTCAACT
1 ATCAAAGTCAACGTGTCAAAGTCAACT
*
643614 ATCAGAGTCAACGTGTCAAAGTCAA
1 ATCAAAGTCAACGTGTCAAAGTCAA
643639 TGGGTCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.20
Consensus pattern (27 bp):
ATCAAAGTCAACGTGTCAAAGTCAACT
Found at i:643638 original size:14 final size:14
Alignment explanation
Indices: 643589--643654 Score: 73
Period size: 14 Copynumber: 4.9 Consensus size: 14
643579 GACTTTTTGA
643589 TCAAAGTCAACG-G
1 TCAAAGTCAACGTG
*
643602 TCAAAGTCAAC-TA
1 TCAAAGTCAACGTG
*
643615 TCAGAGTCAACGTG
1 TCAAAGTCAACGTG
* *
643629 TCAAAGTCAATGGG
1 TCAAAGTCAACGTG
*
643643 TCAAATTCAACG
1 TCAAAGTCAACG
643655 GGTTGACTCG
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
13 21 0.49
14 22 0.51
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (14 bp):
TCAAAGTCAACGTG
Found at i:646970 original size:10 final size:9
Alignment explanation
Indices: 646951--646995 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
646941 ATGCATATAC
*
646951 TAATATATA
1 TAATAAATA
646960 TAATTAAATA
1 TAA-TAAATA
646970 TAATAAATAA
1 TAATAAAT-A
646980 TAATAAATA
1 TAATAAATA
646989 TATATAA
1 TA-ATAA
646996 TAATATTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
9 11 0.34
10 21 0.66
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TAATAAATA
Found at i:646986 original size:19 final size:19
Alignment explanation
Indices: 646945--647014 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 19
646935 TTAATTATGC
*
646945 ATATACTAATATATATAATTAA
1 ATATAATAA-ATA-ATAA-TAA
646967 ATATAATAAATAATAATAA
1 ATATAATAAATAATAATAA
*
646986 ATAT-ATATAATAAT-ATTA
1 ATATAATA-AATAATAATAA
647004 ATATTAATAAA
1 ATA-TAATAAA
647015 GGTAAATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
18 9 0.21
19 16 0.37
20 7 0.16
21 3 0.07
22 8 0.19
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (19 bp):
ATATAATAAATAATAATAA
Found at i:647001 original size:10 final size:10
Alignment explanation
Indices: 646945--647013 Score: 51
Period size: 10 Copynumber: 7.1 Consensus size: 10
646935 TTAATTATGC
646945 ATATACTAAT-
1 ATATA-TAATA
646955 ATATATAATTA
1 ATATATAA-TA
646966 A-ATATAATA
1 ATATATAATA
646975 A-ATAATAATA
1 ATAT-ATAATA
646985 A-ATATATATA
1 ATATATA-ATA
*
646995 ATA-ATATTA
1 ATATATAATA
647004 ATAT-TAATA
1 ATATATAATA
647013 A
1 A
647014 AGGTAAATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
9 21 0.41
10 28 0.55
11 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (10 bp):
ATATATAATA
Found at i:650698 original size:17 final size:17
Alignment explanation
Indices: 650678--650713 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
650668 AATAAAGATC
*
650678 AAATTGATAAAAAATTA
1 AAATTGAGAAAAAATTA
*
650695 AAATTGAGAAAATATTA
1 AAATTGAGAAAAAATTA
650712 AA
1 AA
650714 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (17 bp):
AAATTGAGAAAAAATTA
Found at i:650764 original size:37 final size:40
Alignment explanation
Indices: 650680--650766 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 40
650670 TAAAGATCAA
*
650680 ATTGATAAAAAATTAAAATTGAGAAAATATTAAAGTATTT
1 ATTGATTAAAAATTAAAATTGAGAAAATATTAAAGTATTT
** *
650720 -TAAATTAAAAA-T-AAATTGATAAAAT-TTATAAG-ATTT
1 ATTGATTAAAAATTAAAATTGAGAAAATATTA-AAGTATTT
650756 ATTGATTAAAA
1 ATTGATTAAAA
650767 CTATTATTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
36 7 0.18
37 23 0.59
38 1 0.03
39 8 0.21
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (40 bp):
ATTGATTAAAAATTAAAATTGAGAAAATATTAAAGTATTT
Found at i:651828 original size:21 final size:21
Alignment explanation
Indices: 651794--651855 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
651784 AATATTTTAG
651794 AAAATAAAAATATTAAAAACA
1 AAAATAAAAATATTAAAAACA
* *
651815 AAAATCAAATTATTAAAAACA
1 AAAATAAAAATATTAAAAACA
* *
651836 TTAAATATATAATATTAAAA
1 -AAAATA-AAAATATTAAAA
651856 TACTAAAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 19 0.58
22 4 0.12
23 10 0.30
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAATAAAAATATTAAAAACA
Found at i:652328 original size:2 final size:2
Alignment explanation
Indices: 652321--652348 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
652311 TGTTATATGC
652321 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
652349 TAAAATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:652397 original size:48 final size:47
Alignment explanation
Indices: 652344--652441 Score: 108
Period size: 48 Copynumber: 2.0 Consensus size: 47
652334 TATATATATA
* *
652344 TATATTAAAATTATTTTTGATTTTTGAATAATTT-ATTTTTTATTGTTT
1 TATATT-AAATTA-TTTTAATATTTGAATAATTTAATTTTTTATTGTTT
* * * *
652392 TATATTTATTTATTTTAATATTTGAATATTTTAAATTTTTTATTTTTT
1 TATATTAAATTATTTTAATATTTGAATAATTT-AATTTTTTATTGTTT
652440 TA
1 TA
652442 AAAAATTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
46 17 0.40
47 4 0.10
48 21 0.50
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (47 bp):
TATATTAAATTATTTTAATATTTGAATAATTTAATTTTTTATTGTTT
Found at i:652414 original size:16 final size:16
Alignment explanation
Indices: 652389--652437 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
652379 TTTTTTATTG
652389 TTTT-ATATTTATTTA
1 TTTTAATATTTATTTA
*
652404 TTTTAATATTTGA-ATA
1 TTTTAATATTT-ATTTA
652420 TTTTAA-ATTT-TTTA
1 TTTTAATATTTATTTA
652434 TTTT
1 TTTT
652438 TTTAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 6 0.21
15 8 0.28
16 14 0.48
17 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTAATATTTATTTA
Found at i:652584 original size:21 final size:21
Alignment explanation
Indices: 652546--652585 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
652536 ATCATTGAGC
*
652546 GCCACATCAACACCGTGAACT
1 GCCACATCAACAACGTGAACT
* *
652567 GCCACCTCAACAATGTGAA
1 GCCACATCAACAACGTGAA
652586 TTACCTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (21 bp):
GCCACATCAACAACGTGAACT
Found at i:657268 original size:18 final size:18
Alignment explanation
Indices: 657224--657266 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
657214 AACTTTAGTG
*
657224 AATATTTAGGATATTTTTA
1 AATATTTA-TATATTTTTA
*
657243 TATATTTATATATTTTTA
1 AATATTTATATATTTTTA
657261 AA-ATTT
1 AATATTT
657267 TAAAATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 7 0.33
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
AATATTTATATATTTTTA
Found at i:658095 original size:59 final size:58
Alignment explanation
Indices: 658023--658182 Score: 153
Period size: 59 Copynumber: 2.7 Consensus size: 58
658013 TATTTGATCC
* * * * *
658023 TTAATTAATATTTGGCGTAATTTTTTTAATTTAATTCAAATTT-TCCATAATTTAAAATTAG
1 TTAA-TAA-ATTTGGCGTAAATTTCTCAA-TTAATTC-AATTTATCAATAATTTAAAACTAG
*
658084 TTAATAAATTTGGCTTAAATTTCTCAATTAATTCAATTTAGTCAATAATTTAAAACTAG
1 TTAATAAATTTGGCGTAAATTTCTCAATTAATTCAATTTA-TCAATAATTTAAAACTAG
* * * *
658143 TTGATAAATTTGGCTTTAATCTT-TTAATTAACTTCAATTT
1 TTAATAAATTTGGCGTAAAT-TTCTCAATTAA-TTCAATTT
658183 GCTCTAGTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
57 5 0.06
58 7 0.08
59 57 0.66
60 13 0.15
61 4 0.05
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (58 bp):
TTAATAAATTTGGCGTAAATTTCTCAATTAATTCAATTTATCAATAATTTAAAACTAG
Found at i:659501 original size:33 final size:33
Alignment explanation
Indices: 659459--659530 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
659449 AAACGAACAC
* *
659459 GAACATAAATGAACATGTTCACGAATGTTAAA-
1 GAACATAAATAAACATGTTCACGAACGTTAAAT
659491 GAACACTAAATAAACATGTTCACGAACGTTAAAT
1 GAACA-TAAATAAACATGTTCACGAACGTTAAAT
659525 GAACAT
1 GAACAT
659531 GTTCGTGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 5 0.14
33 26 0.72
34 5 0.14
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.24
Consensus pattern (33 bp):
GAACATAAATAAACATGTTCACGAACGTTAAAT
Found at i:659509 original size:23 final size:23
Alignment explanation
Indices: 659483--659533 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
659473 ATGTTCACGA
659483 ATGTTAAAGAACACTAAATAAAC
1 ATGTTAAAGAACACTAAATAAAC
* * ** *
659506 ATGTTCACGAACGTTAAATGAAC
1 ATGTTAAAGAACACTAAATAAAC
659529 ATGTT
1 ATGTT
659534 CGTGAACGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (23 bp):
ATGTTAAAGAACACTAAATAAAC
Found at i:659534 original size:23 final size:23
Alignment explanation
Indices: 659497--659551 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
659487 TAAAGAACAC
659497 TAAATAAACATGTTCACGAACGT
1 TAAATAAACATGTTCACGAACGT
* **
659520 TAAATGAACATGTTCGTGAACGT
1 TAAATAAACATGTTCACGAACGT
*
659543 TAAACAAAC
1 TAAATAAAC
659552 GAACACGAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (23 bp):
TAAATAAACATGTTCACGAACGT
Found at i:663177 original size:15 final size:15
Alignment explanation
Indices: 663144--663192 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
663134 ACACATTCGT
*
663144 ATAGAACATTTTCCAC
1 ATAGAACATATT-CAC
663160 ATAGAACATATTCAC
1 ATAGAACATATTCAC
* *
663175 ATATAAAATATTCAC
1 ATAGAACATATTCAC
663190 ATA
1 ATA
663193 CTAATACAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (15 bp):
ATAGAACATATTCAC
Found at i:663672 original size:20 final size:20
Alignment explanation
Indices: 663647--663698 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
663637 TCAGTTATAA
*
663647 TATCGATACCTCAACTTTGG
1 TATCGATACCTCAACCTTGG
663667 TATCGATACCTCAACCTTGG
1 TATCGATACCTCAACCTTGG
663687 TATCGATACCTC
1 TATCGATACCTC
663699 CACATCAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (20 bp):
TATCGATACCTCAACCTTGG
Found at i:672868 original size:34 final size:34
Alignment explanation
Indices: 672825--672894 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
672815 TTTGAGGATA
* *
672825 AACAAGCTAGCTTTGAGAAACTGAAGACTGTTCT
1 AACAAGCTAGCTTTGAGAAACTAAAGACTATTCT
*
672859 AACAAGCTAGCTTTGAGAAACTAAAGATTATTCT
1 AACAAGCTAGCTTTGAGAAACTAAAGACTATTCT
672893 AA
1 AA
672895 TTCAAGCTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (34 bp):
AACAAGCTAGCTTTGAGAAACTAAAGACTATTCT
Found at i:675980 original size:21 final size:21
Alignment explanation
Indices: 675954--675995 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
675944 CAGAATGGGG
*
675954 GGAATCGGTACCCCTTCATAA
1 GGAATCGATACCCCTTCATAA
675975 GGAATCGATACCCCTTCATAA
1 GGAATCGATACCCCTTCATAA
675996 TATTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
GGAATCGATACCCCTTCATAA
Found at i:676149 original size:20 final size:20
Alignment explanation
Indices: 676124--676203 Score: 119
Period size: 20 Copynumber: 4.0 Consensus size: 20
676114 ATCTGTACCC
676124 GGGGAATC-GATACCCCCTGG
1 GGGGAATCTG-TACCCCCTGG
676144 GGGGAATC-GATACCCCCTGG
1 GGGGAATCTG-TACCCCCTGG
*
676164 GGGGAATCTGTTCCCCCTGG
1 GGGGAATCTGTACCCCCTGG
676184 GGGGAATCTGTACCCCCTGG
1 GGGGAATCTGTACCCCCTGG
676204 ACAATCTGAT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
20 56 0.98
21 1 0.02
ACGTcount: A:0.16, C:0.30, G:0.35, T:0.19
Consensus pattern (20 bp):
GGGGAATCTGTACCCCCTGG
Found at i:678147 original size:3 final size:3
Alignment explanation
Indices: 678139--678176 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
678129 TACGTCCTCA
* *
678139 TTC TTC TTC TTC TTC TTC TTC TTG TTT TTC TTC -TC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
678177 CCTTTCTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:679542 original size:21 final size:21
Alignment explanation
Indices: 679516--679557 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
679506 CCAGAATGGG
*
679516 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
679537 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
679558 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:679691 original size:15 final size:15
Alignment explanation
Indices: 679671--679727 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
679661 AACCATGCAG
679671 GGGGAATCTGTACCC
1 GGGGAATCTGTACCC
679686 GGGGAATC-GATACCCC
1 GGGGAATCTG-TA-CCC
*
679702 TGGGGGGAATCTGTTCCC
1 ---GGGGAATCTGTACCC
679720 GGGGAATC
1 GGGGAATC
679728 GATACCCCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
14 1 0.03
15 18 0.51
16 3 0.09
18 3 0.09
19 9 0.26
20 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.37, T:0.19
Consensus pattern (15 bp):
GGGGAATCTGTACCC
Found at i:679710 original size:34 final size:35
Alignment explanation
Indices: 679670--679743 Score: 132
Period size: 34 Copynumber: 2.1 Consensus size: 35
679660 AAACCATGCA
679670 GGGGGAATCTGTACCCGGGGAATCGATACCCC-TG
1 GGGGGAATCTGTACCCGGGGAATCGATACCCCTTG
*
679704 GGGGGAATCTGTTCCCGGGGAATCGATACCCCTTG
1 GGGGGAATCTGTACCCGGGGAATCGATACCCCTTG
679739 GGGGG
1 GGGGG
679744 GGGGAATCTG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 31 0.82
35 7 0.18
ACGTcount: A:0.18, C:0.24, G:0.39, T:0.19
Consensus pattern (35 bp):
GGGGGAATCTGTACCCGGGGAATCGATACCCCTTG
Found at i:681665 original size:17 final size:17
Alignment explanation
Indices: 681638--681677 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
681628 GAGCAGTAAC
681638 AAGAT-ATTGTATTTAG
1 AAGATAATTGTATTTAG
*
681654 AAGATAATTGTATTTCG
1 AAGATAATTGTATTTAG
681671 AAGATAA
1 AAGATAA
681678 AAATTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (17 bp):
AAGATAATTGTATTTAG
Found at i:682331 original size:68 final size:68
Alignment explanation
Indices: 682254--682390 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
682244 TCACTAGGTA
*
682254 GTATCGATACTACCAACATTATTCAAATTCCAGAATGTAAAAATGGTACCGATACCCAAAGGGGT
1 GTATCGATACTACCAACATTACTCAAATTCCAGAATGTAAAAATGGTACCGATACCCAAAGGGGT
682319 ACC
66 ACC
* *
682322 GTATCGATACTACCAACATTGCTCAAATTCCAGAATGTAAAAATGGTACTGATACCCAAAGGGGT
1 GTATCGATACTACCAACATTACTCAAATTCCAGAATGTAAAAATGGTACCGATACCCAAAGGGGT
682387 ACC
66 ACC
682390 G
1 G
682391 ATACTACTTT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (68 bp):
GTATCGATACTACCAACATTACTCAAATTCCAGAATGTAAAAATGGTACCGATACCCAAAGGGGT
ACC
Found at i:687990 original size:4 final size:4
Alignment explanation
Indices: 687983--688013 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
687973 AAATGACACA
687983 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
688014 AAAAAAAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:699453 original size:12 final size:13
Alignment explanation
Indices: 699431--699459 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
699421 CTAATTGAAT
699431 TTTTGAATTTTAA
1 TTTTGAATTTTAA
699444 TTTT-AATTTTAA
1 TTTTGAATTTTAA
699456 TTTT
1 TTTT
699460 TGCAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTGAATTTTAA
Found at i:703356 original size:106 final size:106
Alignment explanation
Indices: 703189--704218 Score: 1661
Period size: 106 Copynumber: 9.7 Consensus size: 106
703179 TCCAATTTCA
* * * * * * *
703189 TTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGACTCCAGACAACGTAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
* *
703254 CGACGAAGGGACCGCTGGTTGTTAATAAACAA-TTTTCCAA-
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCT-CAAT
* * * *
703294 TACTAGAGCCAATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTC
1 TTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTC
*
703359 ACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
65 ACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
* * * *
703401 TTTATAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTTA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
703466 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
* * *
703507 TTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
*
703572 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
*
703613 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
* *
703678 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTCCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
703719 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
*
703784 CGACGAAGGGACCGCTGGTTGTCAAAAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
703825 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
* *
703890 CGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
* * **
703931 TTCAGAGCCAATTTAAAATTTCACAATGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTC
1 TTCAGAGCCAATTT-CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTC
*
703996 ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
65 ACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
* *
704038 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
* *
704103 CGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
*
704144 TTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
*
704209 TGACG-AGGGA
66 CGACGAAGGGA
704219 TATCCAATTC
Statistics
Matches: 866, Mismatches: 55, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
105 7 0.01
106 755 0.87
107 104 0.12
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
Found at i:706390 original size:12 final size:13
Alignment explanation
Indices: 706368--706396 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
706358 CTAATTAAAT
706368 TTTTGAATTTTAA
1 TTTTGAATTTTAA
706381 TTTT-AATTTTAA
1 TTTTGAATTTTAA
706393 TTTT
1 TTTT
706397 TGCAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTGAATTTTAA
Found at i:725606 original size:2 final size:2
Alignment explanation
Indices: 725601--725626 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
725591 GTGTAAGTGG
725601 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
725627 GGTTACGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:726212 original size:20 final size:21
Alignment explanation
Indices: 726187--726238 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
726177 TTTTCCCAAT
*
726187 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
726207 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
726228 TCGCAATGCGA
1 TCGCAATGCGA
726239 TACTTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:726252 original size:20 final size:20
Alignment explanation
Indices: 726227--726320 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
726217 AATTGGGAAA
*
726227 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
726247 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
726268 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
726288 TTCGCAATGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
726308 TTCGCAACGCGAT
1 ATCGCAATGCGAT
726321 TTACATAGCG
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.03
20 43 0.72
21 13 0.22
22 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:726909 original size:19 final size:19
Alignment explanation
Indices: 726862--726903 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
726852 ACGAGAGAAT
*
726862 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
*
726881 CGCAACGCGAAACAAAAAT
1 CGCAACGCGAAACAAAAAA
726900 CGCA
1 CGCA
726904 TTGCGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.26, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:726921 original size:19 final size:19
Alignment explanation
Indices: 726899--727097 Score: 158
Period size: 19 Copynumber: 11.1 Consensus size: 19
726889 GAAACAAAAA
*
726899 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
726918 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
726937 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
726956 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
726976 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
726992 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
727009 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
727023 TCTCGTTGCGA--TTC-TA
1 TCGCGTTGCGATTTTCATT
**
727039 T--CGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
727056 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
727076 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
727096 TC
1 TC
727098 AACCAAAAGA
Statistics
Matches: 150, Mismatches: 15, Indels: 30
0.77 0.08 0.15
Matches are distributed among these distances:
14 31 0.21
15 1 0.01
16 4 0.03
17 5 0.03
18 1 0.01
19 59 0.39
20 48 0.32
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:726976 original size:39 final size:38
Alignment explanation
Indices: 726899--727097 Score: 158
Period size: 33 Copynumber: 5.6 Consensus size: 38
726889 GAAACAAAAA
*
726899 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
726937 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * **
726976 TCGCGTTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
727009 TCGCGTTGCGA--TTC---TCTCGTTGCGA--TTC-TA
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
** *
727039 T--CGTTGCGATAGTCATTTCCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTT-CGCGTTGCGATTTTCATT
*
727076 ATCTCGTTGCGATTTTCATTTC
1 -TCGCGTTGCGATTTTCATTTC
727098 AACCAAAAGA
Statistics
Matches: 128, Mismatches: 18, Indels: 29
0.73 0.10 0.17
Matches are distributed among these distances:
28 8 0.06
30 4 0.03
31 5 0.04
33 30 0.23
34 9 0.07
35 1 0.01
36 3 0.02
37 1 0.01
38 22 0.17
39 30 0.23
40 15 0.12
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:727029 original size:14 final size:14
Alignment explanation
Indices: 727012--727048 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
727002 AGTCATTTCG
*
727012 CGTTGCGATTCTCT
1 CGTTGCGATTCTAT
727026 CGTTGCGATTCTAT
1 CGTTGCGATTCTAT
727040 CGTTGCGAT
1 CGTTGCGAT
727049 AGTCATTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTAT
Found at i:727048 original size:47 final size:48
Alignment explanation
Indices: 726979--727072 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 48
726969 TTTCATTTCG
* * *
726979 CGTTGCGATTGTCTGGTCGCGATAGTCATTT-CGCGTTGCGATTCTCT
1 CGTTGCGATTCTATCGTCGCGATAGTCATTTCCGCGTTGCGATTCTCT
*
727026 CGTTGCGATTCTATCGTTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 CGTTGCGATTCTATCGTCGCGATAGTCATTTCCGCGTTGCGATTCTC
727073 ATTATCTCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 27 0.64
48 15 0.36
ACGTcount: A:0.12, C:0.24, G:0.26, T:0.38
Consensus pattern (48 bp):
CGTTGCGATTCTATCGTCGCGATAGTCATTTCCGCGTTGCGATTCTCT
Found at i:727074 original size:20 final size:20
Alignment explanation
Indices: 727040--727097 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
727030 GCGATTCTAT
**
727040 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
727060 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
727080 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
727098 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:729178 original size:21 final size:20
Alignment explanation
Indices: 729154--729223 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
729144 CTATCATTCC
729154 TCAAGAGTCCTCTCCCACCGT
1 TCAAGAGTCC-CTCCCACCGT
* ** *
729175 TCAAGAGGCCACTGTCATCGT
1 TCAAGAGTCC-CTCCCACCGT
* *
729196 TGAAGAGGTCCCTCCCACCAT
1 TCAAGA-GTCCCTCCCACCGT
729217 TCAAGAG
1 TCAAGAG
729224 CCCGATTCAC
Statistics
Matches: 36, Mismatches: 12, Indels: 3
0.71 0.24 0.06
Matches are distributed among these distances:
20 1 0.03
21 32 0.89
22 3 0.08
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.21
Consensus pattern (20 bp):
TCAAGAGTCCCTCCCACCGT
Found at i:729181 original size:42 final size:41
Alignment explanation
Indices: 729105--729223 Score: 105
Period size: 42 Copynumber: 2.8 Consensus size: 41
729095 GACTCGCCTG
* * * * * *
729105 TCATCCCTCAAGTGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCAAGAGTCC-CTCCCACCGTTCAAGAGGCCACTA
*
729147 TCATTCCTCAAGAGTCCTCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCAAGAGTCC-CTCCCACCGTTCAAGAGGCCACTA
* * *
729189 TCA-TCGTTGAAGAGGTCCCTCCCACCATTCAAGAG
1 TCATTC-CTCAAGA-GTCCCTCCCACCGTTCAAGAG
729224 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.03
42 58 0.91
43 4 0.06
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (41 bp):
TCATTCCTCAAGAGTCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:730596 original size:14 final size:14
Alignment explanation
Indices: 730577--730612 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
730567 ATTGTTTAAT
730577 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
730591 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
730605 TGATTTGT
1 TGATTTGT
730613 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:730779 original size:19 final size:19
Alignment explanation
Indices: 730757--730907 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
730747 CGAAATTAAA
730757 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
730776 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
730791 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
730809 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
730823 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
730842 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
730857 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
730875 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
730894 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
730908 AGACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 45 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:730803 original size:33 final size:32
Alignment explanation
Indices: 730761--730887 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
730751 ATTAAATTCG
730761 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
730794 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
730827 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
730860 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
730888 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:730839 original size:66 final size:66
Alignment explanation
Indices: 730754--730886 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
730744 ACGCGAAATT
*
730754 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
730819 G
66 G
*
730820 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
730885 G
66 G
730886 A
1 A
730887 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:733195 original size:12 final size:12
Alignment explanation
Indices: 733178--733202 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
733168 TCTTCGGGGA
733178 CTTTTTCTTCTT
1 CTTTTTCTTCTT
733190 CTTTTTCTTCTT
1 CTTTTTCTTCTT
733202 C
1 C
733203 AAGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:733411 original size:24 final size:24
Alignment explanation
Indices: 733377--733430 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
733367 CTGAAACATC
* * *
733377 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTAACCAAG
*
733401 ATCAAAGTCCGGGTATTAACCAAG
1 ATCAAAATCCGGGTATTAACCAAG
733425 ATCAAA
1 ATCAAA
733431 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTAACCAAG
Found at i:734494 original size:20 final size:20
Alignment explanation
Indices: 734466--734523 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
734456 ATTCATTTGA
734466 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
734486 CTATTGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
734506 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
734524 CGCAATGCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:734566 original size:14 final size:16
Alignment explanation
Indices: 734546--734619 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
734536 TGAAAATCGC
734546 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
734561 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
734578 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
734597 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
734613 -TTGCGAT
1 ATTGCGAT
734620 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:734583 original size:19 final size:19
Alignment explanation
Indices: 734542--734609 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
734532 GAAATGAAAA
734542 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
734558 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
734575 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
734594 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
734610 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:734585 original size:52 final size:52
Alignment explanation
Indices: 734523--734637 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 52
734513 AACGAGAAAA
* ***
734523 TCGCAATGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
** ** **
734575 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
734627 TCGCGTTGCGA
1 TCGCATTGCGA
734638 TAGTCTGTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:734745 original size:14 final size:14
Alignment explanation
Indices: 734726--734762 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
734716 CATCAATTAA
734726 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
734740 ACAAATCATCTTTT
1 ACAAATCAACATTT
734754 ACAAATCAA
1 ACAAATCAA
734763 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:736661 original size:20 final size:19
Alignment explanation
Indices: 736626--736679 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
736616 GAAACTTAAA
736626 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
736645 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
*
736665 ATCGCAATGCGAAAT
1 ATCGCAACGCGAAAT
736680 AAAAATCGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:736717 original size:19 final size:19
Alignment explanation
Indices: 736606--736724 Score: 56
Period size: 20 Copynumber: 6.5 Consensus size: 19
736596 GAATTTTACT
* *
736606 TTCGCAACACGAAACTTAAA
1 TTCGCAACGCGAAA-TGAAA
* *
736626 ATCGCAACGCGAAATG-AC
1 TTCGCAACGCGAAATGAAA
**
736644 TATCGCAACGCGGAAATG-GC
1 T-TCGCAACGC-GAAATGAAA
* *
736664 TATCGCAATGCGAAATAAAA
1 T-TCGCAACGCGAAATGAAA
* *
736684 ATCGCAA--CG--A-CAAA
1 TTCGCAACGCGAAATGAAA
736698 TTCGCAACGCGAAATGAAA
1 TTCGCAACGCGAAATGAAA
736717 -TCGCAACG
1 TTCGCAACG
736725 ACAAAATCGC
Statistics
Matches: 77, Mismatches: 14, Indels: 18
0.71 0.13 0.17
Matches are distributed among these distances:
14 9 0.12
15 1 0.01
16 2 0.03
17 2 0.03
18 10 0.13
19 24 0.31
20 29 0.38
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.15
Consensus pattern (19 bp):
TTCGCAACGCGAAATGAAA
Found at i:736723 original size:32 final size:33
Alignment explanation
Indices: 736665--736754 Score: 128
Period size: 32 Copynumber: 2.8 Consensus size: 33
736655 GGAAATGGCT
*
736665 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATAAAAATCGCAACGACAAA
* *
736698 TTCGCAACGCGAAAT-GAAATCGCAACGACAAA
1 ATCGCAACGCGAAATAAAAATCGCAACGACAAA
* *
736730 ATCGCAACGCGAAACACAAATCGCA
1 ATCGCAACGCGAAATAAAAATCGCA
736755 TTGCGATTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
32 29 0.58
33 21 0.42
ACGTcount: A:0.47, C:0.26, G:0.17, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATAAAAATCGCAACGACAAA
Found at i:736750 original size:19 final size:19
Alignment explanation
Indices: 736693--736754 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
736683 AATCGCAACG
736693 ACAAATTCGCAACGCGAAA-
1 ACAAA-TCGCAACGCGAAAC
**
736712 TGAAATCGCAA--CG--AC
1 ACAAATCGCAACGCGAAAC
736727 A-AAATCGCAACGCGAAAC
1 ACAAATCGCAACGCGAAAC
736745 ACAAATCGCA
1 ACAAATCGCA
736755 TTGCGATTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
14 10 0.29
16 4 0.12
18 9 0.26
19 11 0.32
ACGTcount: A:0.47, C:0.27, G:0.16, T:0.10
Consensus pattern (19 bp):
ACAAATCGCAACGCGAAAC
Found at i:736800 original size:32 final size:32
Alignment explanation
Indices: 736755--736843 Score: 144
Period size: 32 Copynumber: 2.8 Consensus size: 32
736745 ACAAATCGCA
*
736755 TTGCGATTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTCATTTCGCATTGCGATTTTGTCG
*
736787 TTGTGATTTCATTTCGCATTGCGA-TTTGTCG
1 TTGCGATTTCATTTCGCATTGCGATTTTGTCG
736818 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGA-TTTCATTTCGCATTGCGAT
736844 AGCCATTTCC
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
31 12 0.23
32 40 0.77
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.47
Consensus pattern (32 bp):
TTGCGATTTCATTTCGCATTGCGATTTTGTCG
Found at i:736862 original size:20 final size:19
Alignment explanation
Indices: 736828--736882 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
736818 TTGCGATTTT
*
736828 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
736847 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
736867 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
736883 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:737389 original size:18 final size:18
Alignment explanation
Indices: 737363--737408 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
737353 GTCGATCAGA
*
737363 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
737381 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
737399 TGATGGCTCT
1 TGATGGCTCT
737409 CGAAGTGGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.13, C:0.15, G:0.43, T:0.28
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:738771 original size:20 final size:20
Alignment explanation
Indices: 738713--738771 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
738703 AATAGTTTCT
** *
738713 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
*
738733 GAAAATGACTATCACAACGC
1 GAAAATGACTATCGCAACGC
**
738753 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
738772 AGATAATCGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:739060 original size:22 final size:22
Alignment explanation
Indices: 739033--739076 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
739023 GATGGAGATA
739033 GACGGATTTCACCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
**
739055 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
739077 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:739326 original size:41 final size:41
Alignment explanation
Indices: 739263--739340 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
739253 CGAAAGTCAG
* * *
739263 TATCGCGTTACGAAAGTAAGTATCTCGTTGCGATTTTGTAT
1 TATCGCATTACGAAAGTAAGTATCGCATTGCGATTTTGTAT
* * *
739304 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTACGAAAGTAAGTATCGCATTGCGATTTT
739341 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (41 bp):
TATCGCATTACGAAAGTAAGTATCGCATTGCGATTTTGTAT
Found at i:739337 original size:20 final size:20
Alignment explanation
Indices: 739244--739337 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
739234 CGCTTTGAAA
*
739244 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
739264 ATCGCGTTACGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
739284 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCGTTGCGA--TAGTCAGT
*
739305 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
739325 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
739338 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 43 0.72
21 12 0.20
22 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:739351 original size:41 final size:41
Alignment explanation
Indices: 739306--739418 Score: 140
Period size: 41 Copynumber: 2.8 Consensus size: 41
739296 TTTTGTATTA
739306 TCGCATTGCGATAGTCA-GTA-TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGAT--TCACGTATTCGCATTGCGATTTTCCCAAT
* *
739347 TCGCATTGCGATTTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTCACGTATTCGCATTGCGATTTTCCCAAT
* * * *
739388 TCGCGTTGCGATTTACTTATTCACATTGCGA
1 TCGCATTGCGATTCACGTATTCGCATTGCGA
739419 ATTGGGAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
39 2 0.03
40 2 0.03
41 62 0.94
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (41 bp):
TCGCATTGCGATTCACGTATTCGCATTGCGATTTTCCCAAT
Found at i:739352 original size:21 final size:21
Alignment explanation
Indices: 739326--739401 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
739316 ATAGTCAGTA
739326 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* **
739347 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
739367 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
*
739388 TCGCGTTGCGATTT
1 TCGCATTGCGATTT
739402 ACTTATTCAC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:739370 original size:20 final size:21
Alignment explanation
Indices: 739326--739418 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
739316 ATAGTCAGTA
*
739326 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTACCAAT
**
739347 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACCAAT
*
739367 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTACCAAT
* **
739388 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACCAAT
*
739408 TCACATTGCGA
1 TCGCATTGCGA
739419 ATTGGGAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 32 0.54
21 27 0.46
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTACCAAT
Found at i:744151 original size:24 final size:24
Alignment explanation
Indices: 744109--744157 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
744099 ATAAGTGGTT
* *
744109 TTTGAAGCTCTTTAGGAGTTTTAA
1 TTTGAAGCTCTTCAGGAGTTCTAA
* *
744133 TTTGATGCTCTTCATGAGTTCTAA
1 TTTGAAGCTCTTCAGGAGTTCTAA
744157 T
1 T
744158 AATACTAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.47
Consensus pattern (24 bp):
TTTGAAGCTCTTCAGGAGTTCTAA
Found at i:744447 original size:39 final size:39
Alignment explanation
Indices: 744402--744479 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
744392 CCCTCCATCC
* * *
744402 AGCAGCCCCTCCACGTATCATTTCCAGCAGCTTCCAGCA
1 AGCAGCCCCTCCAAGCATCAGTTCCAGCAGCTTCCAGCA
*
744441 AGCAGCCCCTCCAAGCATCAGTTGCAGCAGCTTCCAGCA
1 AGCAGCCCCTCCAAGCATCAGTTCCAGCAGCTTCCAGCA
744480 CTGCCAGGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.24, C:0.40, G:0.18, T:0.18
Consensus pattern (39 bp):
AGCAGCCCCTCCAAGCATCAGTTCCAGCAGCTTCCAGCA
Found at i:748560 original size:20 final size:20
Alignment explanation
Indices: 748527--748564 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
748517 CCCCTTCAAA
748527 GGGGGAATCAGTTCCCTCAT
1 GGGGGAATCAGTTCCCTCAT
* *
748547 GGGGGTATCGGTTCCCTC
1 GGGGGAATCAGTTCCCTC
748565 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCAGTTCCCTCAT
Found at i:754645 original size:22 final size:23
Alignment explanation
Indices: 754598--754662 Score: 114
Period size: 22 Copynumber: 2.9 Consensus size: 23
754588 GAATACATAC
754598 GTCCCGAAGGACCACGTAGAATT
1 GTCCCGAAGGACCACGTAGAATT
754621 GTCCCGAAGGACCACGTA-AATT
1 GTCCCGAAGGACCACGTAGAATT
*
754643 GTCCCGAAGGACCGCGTAGA
1 GTCCCGAAGGACCACGTAGA
754663 CCCTCTACTC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
22 21 0.52
23 19 0.47
ACGTcount: A:0.29, C:0.28, G:0.28, T:0.15
Consensus pattern (23 bp):
GTCCCGAAGGACCACGTAGAATT
Found at i:755345 original size:19 final size:19
Alignment explanation
Indices: 755308--755347 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
755298 CATTTTTATT
* * *
755308 AATAGTATTATATAGTATG
1 AATAGTACTATACAATATG
755327 AATAGTACTATACAATATG
1 AATAGTACTATACAATATG
755346 AA
1 AA
755348 CATACCGTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (19 bp):
AATAGTACTATACAATATG
Found at i:757137 original size:23 final size:23
Alignment explanation
Indices: 757084--757149 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
757074 TATAAAACGT
* *
757084 TAAATTATAAAGTAG-TAAACATA
1 TAAA-TATAAATTAGTTAAAAATA
* *
757107 TAATTATAAATTAGTTAAAAATC
1 TAAATATAAATTAGTTAAAAATA
* *
757130 TAAATATAATTTAATTAAAA
1 TAAATATAAATTAGTTAAAA
757150 TACAATATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
22 9 0.26
23 26 0.74
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (23 bp):
TAAATATAAATTAGTTAAAAATA
Found at i:757446 original size:39 final size:39
Alignment explanation
Indices: 757403--757517 Score: 221
Period size: 39 Copynumber: 2.9 Consensus size: 39
757393 AACTTTTAAT
757403 TAATTCAATAAATTTAATCCTCAATCAGATGATGACACA
1 TAATTCAATAAATTTAATCCTCAATCAGATGATGACACA
757442 TAATTCAATAAATTTAATCCTCAATCAGATGATGACACA
1 TAATTCAATAAATTTAATCCTCAATCAGATGATGACACA
*
757481 TAATTCAATAAATTTAATCCTCAATCAGATGGTGACA
1 TAATTCAATAAATTTAATCCTCAATCAGATGATGACA
757518 TGTGTCACTA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (39 bp):
TAATTCAATAAATTTAATCCTCAATCAGATGATGACACA
Found at i:758203 original size:391 final size:390
Alignment explanation
Indices: 757483--758266 Score: 1433
Period size: 391 Copynumber: 2.0 Consensus size: 390
757473 ATGACACATA
757483 ATTCAATAAATTTAATCCTCAATCAGATGGTGACATGTGTCACTATGGGATTGGATGTTTTTCTT
1 ATTCAATAAATTTAATCCTCAATCAGATGGTGACATGTGTCACTATGGGATTGGATGTTTTTCTT
* *
757548 AATATTTTTATTTAATTTAATAATTTTTCCATTCAATCAAATGGTGTCATGTGTCACCAATTGAA
66 AATATTTTTATTTAATTTAATAAATTTTCCATTCAATCAAATGGAGTCATGTGTCACCAATTGAA
* *
757613 TGAATGGAAAATAAACTGAATCAATAACCAAACCGCTGCTAGTAAGGTTTGAACCAAAGATGTGA
131 TGAATAGAAAATAAACTCAATCAATAACCAAACCGCTGCTAGTAAGGTTTGAACCAAAGATGTGA
* * * *
757678 GGAAAAAGAGCAAACACCCCAACCACTTGGCTAAACCATTCGAATGAAAAACCTATCATGACATA
196 GGAAAAAGAGCAAACACCCCAACCACTGGGATAAACCATTAGAATGAAAAACCTATCATAACATA
*
757743 ATATATATAGTTAATGGCAATAAAAAAGAGAAAATGACCTAATAAGAACTCCAACATAGAATAAT
261 ATATATATAGTTAATGGCAATAAAAAAGAGAAAATGACCTAACAAGAACTCCAACATAGAATAAT
757808 TGAATAAACGATAATATGATATATATACATAAATATTATAACTAATTAATAGGTGAATGTATTTT
326 TGAATAAACGATAATATGATATATATACATAAATATTATAACTAATTAATAGGTGAATGTATTTT
*
757873 ATTCAATAAATTTAATCCTCAATCAGATGGTGACATGTGTCACTATGTGATTGGATGTTTTTTCT
1 ATTCAATAAATTTAATCCTCAATCAGATGGTGACATGTGTCACTATGGGATTGGATG-TTTTTCT
757938 TAATATTTTTATTTAATTTAATAAATTTTCCATTCAATCAAATGGAGTCATGTGTCACCAATTGA
65 TAATATTTTTATTTAATTTAATAAATTTTCCATTCAATCAAATGGAGTCATGTGTCACCAATTGA
*
758003 ATGAATAGAAAATAAACTCAATCAATAACCAAACCGCTGCTGGTAAGGTTTGAACCAAAGATGTG
130 ATGAATAGAAAATAAACTCAATCAATAACCAAACCGCTGCTAGTAAGGTTTGAACCAAAGATGTG
**
758068 AGGAAAAAGAGCAAACACCCCAACCACTGGGATGGACCATTAGAATGAAAAACCTATCATAACAT
195 AGGAAAAAGAGCAAACACCCCAACCACTGGGATAAACCATTAGAATGAAAAACCTATCATAACAT
758133 AATATATATAGTTAATGGCAATAAAAAAGAGAAAATGACCTAACAAGAACTCCAACATAGAATAA
260 AATATATATAGTTAATGGCAATAAAAAAGAGAAAATGACCTAACAAGAACTCCAACATAGAATAA
*
758198 TTGAATAAACGATAATATGATATATATACATAAATATTATAACTAATTAATATGTGAATGTATTT
325 TTGAATAAACGATAATATGATATATATACATAAATATTATAACTAATTAATAGGTGAATGTATTT
758263 T
390 T
758264 ATT
1 ATT
758267 TATATTTTAA
Statistics
Matches: 379, Mismatches: 14, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
390 56 0.15
391 323 0.85
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (390 bp):
ATTCAATAAATTTAATCCTCAATCAGATGGTGACATGTGTCACTATGGGATTGGATGTTTTTCTT
AATATTTTTATTTAATTTAATAAATTTTCCATTCAATCAAATGGAGTCATGTGTCACCAATTGAA
TGAATAGAAAATAAACTCAATCAATAACCAAACCGCTGCTAGTAAGGTTTGAACCAAAGATGTGA
GGAAAAAGAGCAAACACCCCAACCACTGGGATAAACCATTAGAATGAAAAACCTATCATAACATA
ATATATATAGTTAATGGCAATAAAAAAGAGAAAATGACCTAACAAGAACTCCAACATAGAATAAT
TGAATAAACGATAATATGATATATATACATAAATATTATAACTAATTAATAGGTGAATGTATTTT
Found at i:759367 original size:15 final size:16
Alignment explanation
Indices: 759344--759373 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
759334 TAATTATACA
759344 TTTAGTATTTTATAAT
1 TTTAGTATTTTATAAT
759360 TTTA-TATTTTATAA
1 TTTAGTATTTTATAA
759374 ATTAATTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTAGTATTTTATAAT
Found at i:761077 original size:3 final size:3
Alignment explanation
Indices: 761069--761141 Score: 119
Period size: 3 Copynumber: 24.0 Consensus size: 3
761059 TACTTTTAAA
761069 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
761117 ATA ACAT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT
761142 TAAATACAAG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
3 64 0.98
4 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:765211 original size:15 final size:15
Alignment explanation
Indices: 765189--765225 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
765179 TAAGACATTA
*
765189 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
*
765204 CTCGCCCCACATCCG
1 CCCGCCCCACATCCG
765219 CCCGCCC
1 CCCGCCC
765226 AGTTAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.08, C:0.68, G:0.16, T:0.08
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:766955 original size:21 final size:21
Alignment explanation
Indices: 766929--766993 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
766919 AATATAAAAG
*
766929 GTGTACCGATACTCTGATACA
1 GTGTACCGATACCCTGATACA
**
766950 GTGTACTAATACCCTGATACA
1 GTGTACCGATACCCTGATACA
* *
766971 GTGTATCGATACCCTGCTACA
1 GTGTACCGATACCCTGATACA
766992 GT
1 GT
766994 AATTTCAGTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (21 bp):
GTGTACCGATACCCTGATACA
Found at i:767575 original size:18 final size:18
Alignment explanation
Indices: 767552--767586 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
767542 ATTGAATATT
767552 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
767570 TGTCCCGAATGACCACT
1 TGTCCCGAAGGACCACT
767587 GATAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:771924 original size:552 final size:552
Alignment explanation
Indices: 770870--771982 Score: 1868
Period size: 552 Copynumber: 2.0 Consensus size: 552
770860 AATATTCAAT
* * **
770870 TCTCTCACTAACGTCCTACAAATGTAAGAATAAGTAGACCCCGAATCAATTAATATAAAATTATT
1 TCTC-CACTAACGTCCTACAAATGTAAGAATAAGTAGACCCCAAATCAATCAATATAAAAACATT
*
770935 CTTGTCATACAGTTGAAAGATACCTGCTATAATCTCTGGGTCATCTCGATACTCGCTAGTCTTGA
65 CTTGTCATACAGTTGAAAGATACCTGCTATAATCTCCGGGTCATCTCGATACTCGCTAGTCTTGA
* * * *
771000 GATTATACACCCGAGTTGTGGAGCGTATCTCTTGTGGAGCCGAAGACTCTGACTAACTTCTTCCT
130 GATAATACACCCGAGCTGTGGAGCGTACCTCTTGTGGAGCCGAAGACTCTAACTAACTTCTTCCT
*
771065 CTACCTCTACCTCTTCCCCTCTAAGTAGCAGAAGCATACATCTCTGGCTGAGCAGATTCACTAGC
195 CTACCTCTACCTCTTCCCCTCTAAGTAGCAGAAGAATACATCTCTGGCTGAGCAGATTCACTAGC
* * *
771130 TATCATGGGACAATCTCGAATAAAATGTCCCGTGTCTCCCCATTTAAAGCAGGCTCCTGAAATCA
260 TATCATGGGACAATCTCGAATAAAATGTCCCGTGTCTCCACATTTAAAGAAGGCTCCCGAAATCA
*
771195 TTCTACATATCCCGGAGTGATTCTTTCCACAATGTGGACATTGTTTGACTTGGCTCTGGTTAGAT
325 TTCTACATATCCCGGAGTGATTCTTTCCACAATGTGGACATTATTTGACTTGGCTCTGGTTAGAT
* * *
771260 CTCCCAGCTCCAGATCCCACTGACTGTGTTTGTCATCCCCTCATCGGATTTGTTCCTCTCGCGGA
390 CTCCCAGCTCCAGATCCCACTGACTGTGTTTGTCATCCCCTCATCGAATTTGTTCCTCTCACAGA
* * * *
771325 GGAGGCCATTGACTCTCATCTTGCTTGAGGTCGAGAACCAGCATCTCAACCCCTTTTTGATGGTG
455 GGAGACCACTGACTCTCATCTTGCTTGAGGTCGAGAACCAACATCTCAACCCCTTTTTGATGGTA
*
771390 CAAAACTCGATGACGCACCCGTTCTTTTCGATG
520 CAAAACTCGATGACACACCCGTTCTTTTCGATG
* *
771423 TCTCCACTAACTTCCTACAAATGTAAGAATGAGTAGACCCCAAATCAATCAATATAAAAACATTC
1 TCTCCACTAACGTCCTACAAATGTAAGAATAAGTAGACCCCAAATCAATCAATATAAAAACATTC
*
771488 TTGTCATACAGTTGAAATATACCTGCTATAATCTCCGGGTCATCTCGATACTCGCTAGTCTTGAG
66 TTGTCATACAGTTGAAAGATACCTGCTATAATCTCCGGGTCATCTCGATACTCGCTAGTCTTGAG
* * *
771553 ATAATACACCCGAGCTGTGGAGCTTACCTCTTGTGGAGCCGAAGACTCTAACTGACTTCTTCTTC
131 ATAATACACCCGAGCTGTGGAGCGTACCTCTTGTGGAGCCGAAGACTCTAACTAACTTCTTCCTC
* * * *
771618 TGCCTCTACCTCTTCCCCTCTGAGTAGCAGAAGAATACCTCTTTGGCTGAGCAGATTCACTAGCT
196 TACCTCTACCTCTTCCCCTCTAAGTAGCAGAAGAATACATCTCTGGCTGAGCAGATTCACTAGCT
*
771683 ATCATGGGACAATCTCGAATAAAATGTCCCGTGTCTCCACATTTAAAGAAGTCTCCCGAAATCAT
261 ATCATGGGACAATCTCGAATAAAATGTCCCGTGTCTCCACATTTAAAGAAGGCTCCCGAAATCAT
771748 TCTACATATCCCGGAGTGATTCTTTCCACAATGTGGACATTATTTGACTTGGCTCTGGTTAGATC
326 TCTACATATCCCGGAGTGATTCTTTCCACAATGTGGACATTATTTGACTTGGCTCTGGTTAGATC
* * *
771813 TCCCAGCTCCATATCCCACTGATTGTGTTTGTCATCCCCTCATCGAATTTGTTCCTCTCATAGAG
391 TCCCAGCTCCAGATCCCACTGACTGTGTTTGTCATCCCCTCATCGAATTTGTTCCTCTCACAGAG
771878 GAGACCACTGACTC-CGATCTTGCTTGAGGTCGAGAACCAACATCTCAACCCCTTTTTGATGGTA
456 GAGACCACTGACTCTC-ATCTTGCTTGAGGTCGAGAACCAACATCTCAACCCCTTTTTGATGGTA
*
771942 CAAAACTCGATGACACATCCGTTCTTTTCGATG
520 CAAAACTCGATGACACACCCGTTCTTTTCGATG
771975 TCTCCACT
1 TCTCCACT
771983 CTGGAATCTC
Statistics
Matches: 522, Mismatches: 37, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
551 1 0.00
552 517 0.99
553 4 0.01
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.30
Consensus pattern (552 bp):
TCTCCACTAACGTCCTACAAATGTAAGAATAAGTAGACCCCAAATCAATCAATATAAAAACATTC
TTGTCATACAGTTGAAAGATACCTGCTATAATCTCCGGGTCATCTCGATACTCGCTAGTCTTGAG
ATAATACACCCGAGCTGTGGAGCGTACCTCTTGTGGAGCCGAAGACTCTAACTAACTTCTTCCTC
TACCTCTACCTCTTCCCCTCTAAGTAGCAGAAGAATACATCTCTGGCTGAGCAGATTCACTAGCT
ATCATGGGACAATCTCGAATAAAATGTCCCGTGTCTCCACATTTAAAGAAGGCTCCCGAAATCAT
TCTACATATCCCGGAGTGATTCTTTCCACAATGTGGACATTATTTGACTTGGCTCTGGTTAGATC
TCCCAGCTCCAGATCCCACTGACTGTGTTTGTCATCCCCTCATCGAATTTGTTCCTCTCACAGAG
GAGACCACTGACTCTCATCTTGCTTGAGGTCGAGAACCAACATCTCAACCCCTTTTTGATGGTAC
AAAACTCGATGACACACCCGTTCTTTTCGATG
Found at i:773099 original size:20 final size:20
Alignment explanation
Indices: 773076--773133 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
773066 GTACTGTATG
*
773076 AATAGTATCGTTACTATGCA
1 AATAGTATCGATACTATGCA
*
773096 AATAGTATCGATACTGTGCA
1 AATAGTATCGATACTATGCA
* * *
773116 AAAAGTACCAATACTATG
1 AATAGTATCGATACTATG
773134 TGAACAGTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (20 bp):
AATAGTATCGATACTATGCA
Found at i:773211 original size:21 final size:21
Alignment explanation
Indices: 773185--773225 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
773175 GTAAAAGGTA
773185 TACCGATACCCTGA-TACAATG
1 TACCGATACCCT-ACTACAATG
773206 TACCGATACCCTACTACAAT
1 TACCGATACCCTACTACAAT
773226 AATTTCAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.34, C:0.32, G:0.10, T:0.24
Consensus pattern (21 bp):
TACCGATACCCTACTACAATG
Found at i:773817 original size:18 final size:18
Alignment explanation
Indices: 773786--773838 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
773776 ACTGAATATT
773786 TGTCCAGAAAGACCACTA
1 TGTCCAGAAAGACCACTA
* * *
773804 TGTCCCGAATGACCACTT
1 TGTCCAGAAAGACCACTA
* *
773822 TGTCCTGAAGGACCACT
1 TGTCCAGAAAGACCACT
773839 GATAATCCCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (18 bp):
TGTCCAGAAAGACCACTA
Found at i:776434 original size:90 final size:91
Alignment explanation
Indices: 776328--776509 Score: 323
Period size: 90 Copynumber: 2.0 Consensus size: 91
776318 TATCTATAGT
776328 ATAACATTTTTATTTTAAATAATGTTTGAATTCATTGTAAAATTTT-AATTGATTAATAGGAGAA
1 ATAACATTTTTATTTTAAATAATGTTTGAATTCATTGT-AAATTTTAAATTGATTAATAGGAGAA
*
776392 ATT-AGGGATAAAAGGGCAGAGTATGA
65 ATTAAGGGATAAAAGGGAAGAGTATGA
*
776418 ATAACATTTTTATTTTAAATAATGTTTGAATTCATTGTAAATTTTAAATTGATTATTAGGAGAAA
1 ATAACATTTTTATTTTAAATAATGTTTGAATTCATTGTAAATTTTAAATTGATTAATAGGAGAAA
776483 TTAAGGGATAAAAGGGAAGAGTATGA
66 TTAAGGGATAAAAGGGAAGAGTATGA
776509 A
1 A
776510 GCTAAGACTT
Statistics
Matches: 88, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
89 7 0.08
90 58 0.66
91 23 0.26
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.38
Consensus pattern (91 bp):
ATAACATTTTTATTTTAAATAATGTTTGAATTCATTGTAAATTTTAAATTGATTAATAGGAGAAA
TTAAGGGATAAAAGGGAAGAGTATGA
Found at i:783194 original size:21 final size:21
Alignment explanation
Indices: 783165--783211 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
783155 ATTCTGACTA
783165 TCGCATTGCAATTTCCCAAAT
1 TCGCATTGCAATTTCCCAAAT
* * * *
783186 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCAATTTCCCAAAT
783207 TCGCA
1 TCGCA
783212 ATGCGAATAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (21 bp):
TCGCATTGCAATTTCCCAAAT
Found at i:783216 original size:21 final size:21
Alignment explanation
Indices: 783165--783393 Score: 105
Period size: 20 Copynumber: 11.3 Consensus size: 21
783155 ATTCTGACTA
* * * *
783165 TCGCATTGCAATTTCCCAAAT
1 TCGCAATGCGATTTACCTAAT
** *
783186 TCGCGTTGCGATTTTCCTAAT
1 TCGCAATGCGATTTACCTAAT
* * *
783207 TCGCAATGCGA-ATACGTAAA
1 TCGCAATGCGATTTACCTAAT
*** *
783227 TCGCAATGCGA-TTAGGAAAA
1 TCGCAATGCGATTTACCTAAT
* *
783247 TCGCAATGCGA-TTACGTAAA
1 TCGCAATGCGATTTACCTAAT
* *** *
783267 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGATTTACCTAAT
* *
783288 TCGCAATGCGA-TTACGTAAA
1 TCGCAATGCGATTTACCTAAT
* *** *
783308 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGATTTACCTAAT
* *
783329 TCGCAATGCGA-TTACGTAAA
1 TCGCAATGCGATTTACCTAAT
*
783349 TCGCAATGCGA-TTACGT-AT
1 TCGCAATGCGATTTACCTAAT
* *
783368 TCGCATTGCGATTTACGTAA-
1 TCGCAATGCGATTTACCTAAT
783388 TCGCAA
1 TCGCAA
783394 CGAGATTCTG
Statistics
Matches: 178, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.06
20 104 0.58
21 63 0.35
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (21 bp):
TCGCAATGCGATTTACCTAAT
Found at i:783232 original size:20 final size:20
Alignment explanation
Indices: 783207--783393 Score: 252
Period size: 20 Copynumber: 9.3 Consensus size: 20
783197 TTTTCCTAAT
*
783207 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGATTACGTAAA
* *
783227 TCGCAATGCGATTAGGAAAA
1 TCGCAATGCGATTACGTAAA
783247 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
* *
783267 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCG-ATTACGTAAA
783288 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
* *
783308 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCG-ATTACGTAAA
783329 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
*
783349 TCGCAATGCGATTACGT-AT
1 TCGCAATGCGATTACGTAAA
*
783368 TCGCATTGCGATTTACGT-AA
1 TCGCAATGCGA-TTACGTAAA
783388 TCGCAA
1 TCGCAA
783394 CGAGATTCTG
Statistics
Matches: 147, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
19 11 0.07
20 100 0.68
21 36 0.24
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGATTACGTAAA
Found at i:783237 original size:41 final size:41
Alignment explanation
Indices: 783207--783393 Score: 292
Period size: 41 Copynumber: 4.6 Consensus size: 41
783197 TTTTCCTAAT
*
783207 TCGCAATGCGAATACGTAAATCGCAATGCG-ATTAGGAAAA
1 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
783247 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
783288 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
* * *
783329 TCGCAATGCGATTACGTAAATCGCAATGCG-ATTACG-TAT
1 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
*
783368 TCGCATTGCGATTTACGT-AATCGCAA
1 TCGCAATGCGA-TTACGTAAATCGCAA
783394 CGAGATTCTG
Statistics
Matches: 140, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
39 19 0.14
40 40 0.29
41 81 0.58
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (41 bp):
TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
Found at i:783290 original size:61 final size:60
Alignment explanation
Indices: 783207--783393 Score: 245
Period size: 61 Copynumber: 3.1 Consensus size: 60
783197 TTTTCCTAAT
*
783207 TCGCAATGCGAA-TACGTAAATCGCAATGCGATTAGGAAAATCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATTACGTAAATCGCAATGCGATTACG-AAATCGCAATGCGATTACGTAAA
* * * *
783267 TCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGTAAATCGCAATGCGATTACG-AAATCGCAATGCG-ATTACGTAAA
* * *
783329 TCGCAATGCG-ATTACGTAAATCGCAATGCGATTACGTATTCGCATTGCGATTTACGT-AA
1 TCGCAATGCGAATTACGTAAATCGCAATGCGATTACGAAATCGCAATGCGA-TTACGTAAA
783388 TCGCAA
1 TCGCAA
783394 CGAGATTCTG
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
59 9 0.08
60 26 0.23
61 58 0.52
62 18 0.16
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (60 bp):
TCGCAATGCGAATTACGTAAATCGCAATGCGATTACGAAATCGCAATGCGATTACGTAAA
Found at i:786771 original size:20 final size:19
Alignment explanation
Indices: 786743--786797 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
786733 CAATCATCTT
*
786743 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
786763 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
786782 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
786798 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:786785 original size:19 final size:17
Alignment explanation
Indices: 786750--786853 Score: 76
Period size: 19 Copynumber: 6.1 Consensus size: 17
786740 CTTAATGTCT
*
786750 ATCGCAACGCGGAAATGA
1 ATCGCAATGC-GAAATGA
786768 CTATCGCAATGCGAAATGAAA
1 --ATCGCAATGCGAAATG--A
*
786789 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
786803 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
786822 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
786836 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
786853 A
1 A
786854 AATCACAACG
Statistics
Matches: 69, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
14 16 0.23
16 10 0.14
17 12 0.17
19 21 0.30
20 9 0.13
21 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.13
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:786807 original size:14 final size:14
Alignment explanation
Indices: 786788--786842 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
786778 GCGAAATGAA
786788 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
786802 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
786821 AATCGCAACGAGAG
1 AATCGCAACGAGAG
786835 AATCGCAA
1 AATCGCAA
786843 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:786812 original size:33 final size:33
Alignment explanation
Indices: 786770--786896 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
786760 GGAAATGACT
786770 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
786803 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
786836 ATCGCAATGCGAAATGAAAATCACAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
786869 ATCGCAAAGTGAAATGAAAATTGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
786897 CGAATTTAGT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Done.