Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold243
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: 1218968
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 59385 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:636365 original size:9 final size:9
Alignment explanation
Indices: 636353--636500 Score: 54
Period size: 9 Copynumber: 15.4 Consensus size: 9
636343 AAAAAAATCA
636353 ATAAAAATT
1 ATAAAAATT
636362 ATAAAAATT
1 ATAAAAATT
*
636371 AGAAAAAAGATT
1 --ATAAAA-ATT
636383 ATAAAAATCCT
1 ATAAAAAT--T
636394 A-AAAAATT
1 ATAAAAATT
*
636402 ATAAATA-T
1 ATAAAAATT
* *
636410 AGAAAAAAT
1 ATAAAAATT
636419 ATATAAAATT
1 ATA-AAAATT
*
636429 -TATAAAGTCGT
1 ATA-AAAAT--T
*
636440 A-AGAAAATG
1 ATA-AAAATT
*
636449 ATAAAAAAT
1 ATAAAAATT
* *
636458 GTAAAGAAAT
1 ATAAA-AATT
636468 AT-AAAATT
1 ATAAAAATT
636476 CATAAAAGAATT
1 -AT-AAA-AATT
636488 ATAAAAATT
1 ATAAAAATT
636497 ATAA
1 ATAA
636501 TTATCATGCC
Statistics
Matches: 106, Mismatches: 16, Indels: 34
0.68 0.10 0.22
Matches are distributed among these distances:
8 11 0.10
9 46 0.43
10 25 0.24
11 17 0.16
12 7 0.07
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.27
Consensus pattern (9 bp):
ATAAAAATT
Found at i:636389 original size:40 final size:38
Alignment explanation
Indices: 636333--636426 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 38
636323 GACATGTGAC
*
636333 AAAAAATGATAAAAAAATCA-ATAAAAATTATAAAAATTAG
1 AAAAAA-GATATAAAAATCATA-AAAAATTATAAAAA-TAG
* *
636373 AAAAAAGATTATAAAAATCCTAAAAAATTATAAATATAG
1 AAAAAAGA-TATAAAAATCATAAAAAATTATAAAAATAG
*
636412 AAAAAATATATAAAA
1 AAAAAAGATATAAAA
636427 TTTATAAAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
38 7 0.15
39 12 0.25
40 28 0.58
41 1 0.02
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.23
Consensus pattern (38 bp):
AAAAAAGATATAAAAATCATAAAAAATTATAAAAATAG
Found at i:636397 original size:21 final size:19
Alignment explanation
Indices: 636345--636426 Score: 78
Period size: 19 Copynumber: 4.2 Consensus size: 19
636335 AAAATGATAA
636345 AAAAATCA-ATAAAAATTAT
1 AAAAATCAGA-AAAAATTAT
*
636364 AAAAATTAGAAAAAAGATTAT
1 AAAAATCAG-AAAAA-ATTAT
**
636385 AAAAATCCTAAAAAATTAT
1 AAAAATCAGAAAAAATTAT
*
636404 AAATAT-AGAAAAAATATAT
1 AAAAATCAGAAAAAAT-TAT
636423 AAAA
1 AAAA
636427 TTTATAAAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.14
19 23 0.45
20 9 0.18
21 12 0.24
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.24
Consensus pattern (19 bp):
AAAAATCAGAAAAAATTAT
Found at i:636756 original size:13 final size:13
Alignment explanation
Indices: 636740--636766 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
636730 TTTAGTAAAA
636740 TTTAAATATTTAT
1 TTTAAATATTTAT
636753 TTTAAATATTTAT
1 TTTAAATATTTAT
636766 T
1 T
636767 AAAGTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTAAATATTTAT
Found at i:636793 original size:19 final size:19
Alignment explanation
Indices: 636761--636804 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
636751 ATTTTAAATA
636761 TTTATTAAAGTTTAATGATT
1 TTTA-TAAAGTTTAATGATT
* *
636781 TTTATAAATTTTATTGATT
1 TTTATAAAGTTTAATGATT
636800 TTTAT
1 TTTAT
636805 TTTTTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTTATAAAGTTTAATGATT
Found at i:637109 original size:3 final size:3
Alignment explanation
Indices: 637101--637131 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
637091 TGGCCACATT
637101 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
637132 TAAAAGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:641051 original size:56 final size:55
Alignment explanation
Indices: 640948--641095 Score: 165
Period size: 56 Copynumber: 2.7 Consensus size: 55
640938 TCATATAATG
* *
640948 CCATGGGTCTTAACCAT-ATAGTCTTACATACATTTATTCAATAATATCAGATCTTGT
1 CCATGGGTCTTAACC-TCATGGTCTTACATACATTCATTCAATAATATC-GATCTT-T
* * * * *
641005 -GATGGGTCTTAACCTCATGGTCTTACATGCATTCGTTCAGTTATATCGATCTTT
1 CCATGGGTCTTAACCTCATGGTCTTACATACATTCATTCAATAATATCGATCTTT
* **
641059 CCATGGATCTTAAGGTCATGGTCTTACATACATTCAT
1 CCATGGGTCTTAACCTCATGGTCTTACATACATTCAT
641096 ATATCGCGAT
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
54 1 0.01
55 37 0.49
56 38 0.50
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (55 bp):
CCATGGGTCTTAACCTCATGGTCTTACATACATTCATTCAATAATATCGATCTTT
Found at i:642378 original size:26 final size:26
Alignment explanation
Indices: 642325--642387 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
642315 TTATTTTTCC
* *
642325 ATTATTATATAATTTATAATAAATTT
1 ATTACTATTTAATTTATAATAAATTT
642351 ATT-CATATTTAATTTATAATATAA-TT
1 ATTAC-TATTTAATTTATAATA-AATTT
642377 ATTACTATTTA
1 ATTACTATTTA
642388 TGTTTTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 29 0.91
27 3 0.09
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTACTATTTAATTTATAATAAATTT
Found at i:642475 original size:137 final size:138
Alignment explanation
Indices: 642314--642590 Score: 538
Period size: 137 Copynumber: 2.0 Consensus size: 138
642304 TAAAAATTCA
642314 TTTATTTTTCCATTATTATATAATTTATAATAAATTTATTCATATTTAATTTATAATATAATTAT
1 TTTATTTTTCCA-TATTATATAATTTATAATAAATTTATTCATATTTAATTTATAATATAATTAT
642379 TACTATTTATGTTTTATTACTTTATATCTAAAAGATGAAAAAATATTTCTTTTTATGATTTGTTT
65 TACTATTTATGTTTTATTACTTTATATCTAAAAGATGAAAAAATATTTCTTTTTATGATTTGTTT
642444 GTTTATTAT
130 GTTTATTAT
642453 TTTATTTTTCC-TATTATATAATTTATAATAAATTTATTCATATTTAATTTATAATATAATTATT
1 TTTATTTTTCCATATTATATAATTTATAATAAATTTATTCATATTTAATTTATAATATAATTATT
642517 ACTATTTATGTTTTATTACTTTATATCTAAAAGATGAAAAAATATTTCTTTTTATGATTTGTTTG
66 ACTATTTATGTTTTATTACTTTATATCTAAAAGATGAAAAAATATTTCTTTTTATGATTTGTTTG
642582 TTTATTAT
131 TTTATTAT
642590 T
1 T
642591 CATTAACAAT
Statistics
Matches: 138, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
137 127 0.92
139 11 0.08
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.56
Consensus pattern (138 bp):
TTTATTTTTCCATATTATATAATTTATAATAAATTTATTCATATTTAATTTATAATATAATTATT
ACTATTTATGTTTTATTACTTTATATCTAAAAGATGAAAAAATATTTCTTTTTATGATTTGTTTG
TTTATTAT
Found at i:642515 original size:26 final size:26
Alignment explanation
Indices: 642471--642524 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
642461 TCCTATTATA
642471 TAATTTATAATAAATTTATT-CATATT
1 TAATTTATAATAAATTTATTAC-TATT
642497 TAATTTATAATATAA-TTATTACTATT
1 TAATTTATAATA-AATTTATTACTATT
642523 TA
1 TA
642525 TGTTTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (26 bp):
TAATTTATAATAAATTTATTACTATT
Found at i:645597 original size:3 final size:3
Alignment explanation
Indices: 645589--645634 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
645579 AATATAAAGT
* *
645589 TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA -AA GAA -AA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
645634 T
1 T
645635 GATAGTGGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 6 0.15
3 33 0.85
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:646525 original size:49 final size:49
Alignment explanation
Indices: 646453--646549 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
646443 TCTAGAAGGG
* * *
646453 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAGACAATGGAAGACCAAGTTTAGAAATGT
* *
646502 ATAAATAGTGATAAGAGTGTAGACAATGGACGGCCAAGTTTAGAAATG
1 ATAAATAGTGATAAGAGTGTAGACAATGGAAGACCAAGTTTAGAAATG
646550 CATAGCATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.25
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAATGGAAGACCAAGTTTAGAAATGT
Found at i:647298 original size:27 final size:28
Alignment explanation
Indices: 647223--647301 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 28
647213 ACATGTCAGA
* *
647223 AAAGAATAAGCCTTTGTGGCGAACTATG
1 AAAGAATAAGCCCTTGTGGCGAATTATG
*
647251 AAAGAATAAG-CCTCGTGGCGAATTATG
1 AAAGAATAAGCCCTTGTGGCGAATTATG
* *
647278 AAAG-ATTAGCCCTTGTAGCGAATT
1 AAAGAATAAGCCCTTGTGGCGAATT
647302 CCATATGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.09
27 30 0.68
28 10 0.23
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (28 bp):
AAAGAATAAGCCCTTGTGGCGAATTATG
Found at i:652652 original size:29 final size:27
Alignment explanation
Indices: 652591--652652 Score: 63
Period size: 29 Copynumber: 2.2 Consensus size: 27
652581 ATACGGACTA
*
652591 AAATAATAATTTATTACATTTTAAACT
1 AAATAATAATTTATAACATTTTAAACT
*
652618 ATAATAATAAATTTA-AACATTATTGAAATT
1 A-AATAAT-AATTTATAACATT-TT-AAACT
652648 AAATA
1 AAATA
652653 CTACAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 11 0.38
29 12 0.41
30 5 0.17
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (27 bp):
AAATAATAATTTATAACATTTTAAACT
Found at i:653076 original size:211 final size:211
Alignment explanation
Indices: 652712--653133 Score: 790
Period size: 211 Copynumber: 2.0 Consensus size: 211
652702 AATGAATTAT
*
652712 ATTAAATTAAAATTTATTTCAAAACTGAGGGACTGATCCAGCAATTAAGCGCAAACACTAAAATA
1 ATTAAATCAAAATTTATTTCAAAACTGAGGGACTGATCCAGCAATTAAGCGCAAACACTAAAATA
652777 ATTTCAATCAACCACATAAAACGGTACCGTTTCAATTTGGATATGAATGAGAACAGAACAAAATA
66 ATTTCAATCAACCACATAAAACGGTACCGTTTCAATTTGGATATGAATGAGAACAGAACAAAATA
652842 TGAAGTACAAATTACAAACAGATAAAAAAGATCAAATTGCAACTCCATAAACACGCAAGGACCCA
131 TGAAGTACAAATTACAAACAGATAAAAAAGATCAAATTGCAACTCCATAAACACGCAAGGACCCA
*
652907 TCGAATAAATATACCA
196 TCGAATAAATAGACCA
652923 ATTAAATCAAAATTTATTTCAAAACTGAGGGACTGATCCAGCAATTAAGCGCAAACACTAAAATA
1 ATTAAATCAAAATTTATTTCAAAACTGAGGGACTGATCCAGCAATTAAGCGCAAACACTAAAATA
* * *
652988 ATTTCAATCAACCACATAGAACGGTACCGTTTTAATTTGGATCTGAATGAGAACAGAACAAAATA
66 ATTTCAATCAACCACATAAAACGGTACCGTTTCAATTTGGATATGAATGAGAACAGAACAAAATA
653053 TGAAGTACAAATTACAAACAGATAAAAAAGATCAAATTGCAACTCCATAAACACGCAAGGACCCA
131 TGAAGTACAAATTACAAACAGATAAAAAAGATCAAATTGCAACTCCATAAACACGCAAGGACCCA
*
653118 TTGAATAAATAGACCA
196 TCGAATAAATAGACCA
653134 TTTGGTCCTA
Statistics
Matches: 205, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
211 205 1.00
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (211 bp):
ATTAAATCAAAATTTATTTCAAAACTGAGGGACTGATCCAGCAATTAAGCGCAAACACTAAAATA
ATTTCAATCAACCACATAAAACGGTACCGTTTCAATTTGGATATGAATGAGAACAGAACAAAATA
TGAAGTACAAATTACAAACAGATAAAAAAGATCAAATTGCAACTCCATAAACACGCAAGGACCCA
TCGAATAAATAGACCA
Found at i:654524 original size:50 final size:51
Alignment explanation
Indices: 654467--654682 Score: 208
Period size: 50 Copynumber: 4.3 Consensus size: 51
654457 ATTTGCCTTC
* * *
654467 GTAGCTTTAATCTGTTTCATTACACT-TCAAGGGAAGTAAGATTCG-TCGTT
1 GTAGCTTTAATCTGTTTCACTGCAATGTCAAGGGAAGTAAGATTCGCT-GTT
* * * ** * * *
654517 GTGGCTTTAATCTTTTTAACTGCAATGT-TGGGGAAGCAAGATTCACCGTT
1 GTAGCTTTAATCTGTTTCACTGCAATGTCAAGGGAAGTAAGATTCGCTGTT
* ** *
654567 GTAGCTTTAATCTGTTCCACTGCACCGCCAA-GGAAGTAAGATTCGCTGTT
1 GTAGCTTTAATCTGTTTCACTGCAATGTCAAGGGAAGTAAGATTCGCTGTT
* * * *
654617 GTGGCTTTAATCTTTTTAACTGCAATGTC-GGGGAAGTAAGATTCGCTGTT
1 GTAGCTTTAATCTGTTTCACTGCAATGTCAAGGGAAGTAAGATTCGCTGTT
*
654667 GTAGCTTCAATCTGTT
1 GTAGCTTTAATCTGTT
654683 CCATTGTACC
Statistics
Matches: 128, Mismatches: 34, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
50 127 0.99
51 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (51 bp):
GTAGCTTTAATCTGTTTCACTGCAATGTCAAGGGAAGTAAGATTCGCTGTT
Found at i:654608 original size:100 final size:100
Alignment explanation
Indices: 654435--654707 Score: 336
Period size: 100 Copynumber: 2.7 Consensus size: 100
654425 CTTCTGTCTG
* * * ** * * **
654435 ACTGCATTGTCGGCGAAACAAGATTTGCC-TTCGTAGCTTTAATCTGTTTCATTACA-CTTCAAG
1 ACTGCAATGTCGGGGAAGCAAGATTCACCGTT-GTAGCTTTAATCTGTTCCATTGCACCGCCAA-
654498 GGAAGTAAGATTCG-TCGTTGTGGCTTTAATCTTTTTA
64 GGAAGTAAGATTCGCT-GTTGTGGCTTTAATCTTTTTA
* *
654535 ACTGCAATGTTGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGTTCCACTGCACCGCCAAGG
1 ACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGTTCCATTGCACCGCCAAGG
654600 AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTA
66 AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTA
* * * * * **
654635 ACTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCATTGTACCGCCTGGG
1 ACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGTTCCATTGCACCGCCAAGG
654700 AAGTAAGA
66 AAGTAAGA
654708 ATTACTATTC
Statistics
Matches: 150, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
100 143 0.95
101 7 0.05
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (100 bp):
ACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGTTCCATTGCACCGCCAAGG
AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTA
Found at i:654701 original size:50 final size:50
Alignment explanation
Indices: 654467--654707 Score: 187
Period size: 50 Copynumber: 4.8 Consensus size: 50
654457 ATTTGCCTTC
* * * ** *
654467 GTAGCTTTAATCTGTTTCATTACACTTCAAGGGAAGTAAGATTCG-TCGTT
1 GTAGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCT-GTT
* * ** ** *** * * *
654517 GTGGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCACCGTT
1 GTAGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
*
654567 GTAGCTTTAATCTGTTCCACTGCACCGCCAAGGAAGTAAGATTCGCTGTT
1 GTAGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
* * ** ** * *
654617 GTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCGCTGTT
1 GTAGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
* * * *
654667 GTAGCTTCAATCTGTTCCATTGTACCGCCTGGGAAGTAAGA
1 GTAGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGA
654708 ATTACTATTC
Statistics
Matches: 144, Mismatches: 46, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
50 144 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (50 bp):
GTAGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
Found at i:654833 original size:44 final size:43
Alignment explanation
Indices: 654735--655097 Score: 270
Period size: 44 Copynumber: 8.5 Consensus size: 43
654725 GCCCCACTGT
* * * * * * *
654735 AACTTCAGGGAGATAAGACT-TGA-TGCGATCCACTCTACTGC
1 AACTTCAGGGAGATAAGATTATTACTTCAATCCGCTCCACTAC
* * * *
654776 AAGTTCAGAGAGATAAGATCTATTACTTTAATTCGCTCCACTAC
1 AACTTCAGGGAGATAAGAT-TATTACTTCAATCCGCTCCACTAC
* ** ** *
654820 AACTTCAGGGAGATAGGATTATCGGCTTCAATTTGCTCCACTGC
1 AACTTCAGGGAGATAAGATTAT-TACTTCAATCCGCTCCACTAC
* * * * * *
654864 AACCTCAGGGAGATAAGA-T-TTAATGCGATCCACTCTACTAC
1 AACTTCAGGGAGATAAGATTATTACTTCAATCCGCTCCACTAC
* *
654905 AACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTAC
1 AACTTCAGGGAGATAAGAT-TATTACTTCAATCCGCTCCACTAC
* ** * *
654949 AACTTCAGGGAGATAGGATTATCGCCTTCAATCTGCTCCACTGC
1 AACTTCAGGGAGATAAGATTAT-TACTTCAATCCGCTCCACTAC
* * * * * *
654993 AACCTCAGGGAGATAAGA-T-TTAATACAATCCACTCTACTGC
1 AACTTCAGGGAGATAAGATTATTACTTCAATCCGCTCCACTAC
** * *
655034 AACTTCAGTAAGATAAGATCTATTACTTTAATCCACTCCACTAC
1 AACTTCAGGGAGATAAGAT-TATTACTTCAATCCGCTCCACTAC
*
655078 AACTTCAGGGAGATAGGATT
1 AACTTCAGGGAGATAAGATT
655098 TGTGGCTTAA
Statistics
Matches: 245, Mismatches: 66, Indels: 20
0.74 0.20 0.06
Matches are distributed among these distances:
41 72 0.29
42 3 0.01
43 13 0.05
44 157 0.64
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
AACTTCAGGGAGATAAGATTATTACTTCAATCCGCTCCACTAC
Found at i:655073 original size:85 final size:84
Alignment explanation
Indices: 654735--655098 Score: 266
Period size: 85 Copynumber: 4.2 Consensus size: 84
654725 GCCCCACTGT
* * * * * *
654735 AACTTCAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAAGTTCA-GAGAGATAAGATCTAT
1 AACTTCAGGGAGATAAGATTTAATACAATCCACTCCACTGCAACTTCAGGA-AGATAAGAT-TAT
* * *
654799 TACTTTAATTCGCTCCACTAC
64 TACTTCAATCCACTCCACTAC
* ** * *** * *
654820 AACTTCAGGGAGATAGGATTATCGGCTTCAATTTGCTCCACTGCAACCTCAGGGAGATAAGA-T-
1 AACTTCAGGGAGATAAGATT-T--AATACAATCCACTCCACTGCAACTTCAGGAAGATAAGATTA
* * * *
654883 TTAATGCGATCCACTCTACTAC
63 TTACTTCAATCCACTCCACTAC
* * * * * * *
654905 AACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTA
1 AACTTCAGGGAGATAAGATTTAATAC---AATCCACTCCACTGCAACTTCAGGAAGATAAGATTA
** ** *
654970 TCGCCTTCAATCTGCTCCACTGC
63 T-TACTTCAATCCACTCCACTAC
* * *
654993 AACCTCAGGGAGATAAGATTTAATACAATCCACTCTACTGCAACTTCAGTAAGATAAGATCTATT
1 AACTTCAGGGAGATAAGATTTAATACAATCCACTCCACTGCAACTTCAGGAAGATAAGAT-TATT
*
655058 ACTTTAATCCACTCCACTAC
65 ACTTCAATCCACTCCACTAC
*
655078 AACTTCAGGGAGATAGGATTT
1 AACTTCAGGGAGATAAGATTT
655099 GTGGCTTAAA
Statistics
Matches: 211, Mismatches: 57, Indels: 22
0.73 0.20 0.08
Matches are distributed among these distances:
82 2 0.01
84 1 0.00
85 140 0.66
86 6 0.03
87 1 0.00
88 60 0.28
89 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (84 bp):
AACTTCAGGGAGATAAGATTTAATACAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATTA
CTTCAATCCACTCCACTAC
Found at i:655111 original size:129 final size:129
Alignment explanation
Indices: 654722--655114 Score: 619
Period size: 129 Copynumber: 3.0 Consensus size: 129
654712 CTATTCACAG
* * * * * *
654722 TCTGCCCCACTGTAACTTCAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAAGTTCAGAGA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGCGATCCACTCTACTGCAACTTCAGAGA
*
654787 GATAAGATCTATTACTTTAATTCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAA
66 GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAA
* *
654851 TTTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGCGATCCACTCTACTACAACTTCAGAGA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGCGATCCACTCTACTGCAACTTCAGAGA
*
654916 GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGCCTTCAA
66 GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAA
* *
654980 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATACAATCCACTCTACTGCAACTTCAGTA-
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGCGATCCACTCTACTGCAACTTCAG-AG
* * *
655044 AGATAAGATCTATTACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATT-TGTGGCTTAA
65 AGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAT-CGGCTTCA
655108 A
129 A
655109 TCTGCT
1 TCTGCT
655115 TCCTTACACT
Statistics
Matches: 244, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
128 1 0.00
129 242 0.99
130 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (129 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTAATGCGATCCACTCTACTGCAACTTCAGAGA
GATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAA
Found at i:655216 original size:129 final size:129
Alignment explanation
Indices: 655083--655359 Score: 464
Period size: 129 Copynumber: 2.1 Consensus size: 129
655073 ACTACAACTT
*
655083 CAGGGAGATAGGATTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
1 CAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
655148 GATCTACCCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGATGAC
66 GATCTACCCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGATGAC
* ** *
655212 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACTTTTGAAGATAAGGTTCGCCGTCTTC
1 CAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * *
655277 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACTTATTCCACTGATGAC
66 GATCTACCCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGATGAC
* *
655341 CAGGGATATAAGACTTGTG
1 CAGGGAGATAGGACTTGTG
655360 ACTTCACCGA
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 139 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (129 bp):
CAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
GATCTACCCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGATGAC
Found at i:656631 original size:21 final size:21
Alignment explanation
Indices: 656607--656648 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
656597 TAGCCTCTCC
656607 ATTTTTACTTTTT-CATTTTTT
1 ATTTTTA-TTTTTACATTTTTT
*
656628 ATTTTTATTTTTATATTTTTT
1 ATTTTTATTTTTACATTTTTT
656649 TGACTCAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (21 bp):
ATTTTTATTTTTACATTTTTT
Found at i:656647 original size:14 final size:14
Alignment explanation
Indices: 656607--656647 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
656597 TAGCCTCTCC
*
656607 ATTTTTACT-TTTTC
1 ATTTTTA-TATTTTT
656621 ATTTTT-TATTTTT
1 ATTTTTATATTTTT
656634 ATTTTTATATTTTT
1 ATTTTTATATTTTT
656648 TTGACTCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 1 0.04
13 10 0.42
14 13 0.54
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (14 bp):
ATTTTTATATTTTT
Found at i:662289 original size:29 final size:27
Alignment explanation
Indices: 662228--662289 Score: 63
Period size: 29 Copynumber: 2.2 Consensus size: 27
662218 ATACGGACTA
*
662228 AAATAATAATTTATTACATTTTAAACT
1 AAATAATAATTTATAACATTTTAAACT
*
662255 ATAATAATAAATTTA-AACATTATTGAAATT
1 A-AATAAT-AATTTATAACATT-TT-AAACT
662285 AAATA
1 AAATA
662290 CTATAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 11 0.38
29 12 0.41
30 5 0.17
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (27 bp):
AAATAATAATTTATAACATTTTAAACT
Found at i:663612 original size:14 final size:13
Alignment explanation
Indices: 663585--663611 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
663575 ACATTTTCAC
663585 AGCACTTTTTAAA
1 AGCACTTTTTAAA
663598 AGCACTTTTTAAA
1 AGCACTTTTTAAA
663611 A
1 A
663612 ATAATGCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (13 bp):
AGCACTTTTTAAA
Found at i:666331 original size:40 final size:39
Alignment explanation
Indices: 666262--666415 Score: 175
Period size: 40 Copynumber: 3.8 Consensus size: 39
666252 AGCGGCATTT
*
666262 TTAGCGGCGTTTGGATAAAAAACGCCGCTAAAAATCGAGCA
1 TTAGCGGCGTTT--TTAAAAAACGCCGCTAAAAATCGAGCA
* *
666303 TTAGCGGCGCTTTTCAAAAAACGCCGCTAAAGATCGAGCA
1 TTAGCGGCG-TTTTTAAAAAACGCCGCTAAAAATCGAGCA
* *
666343 TTAGCGGCGTTTTTAAAAAAGCTCCGCTAAAAAT-AAGCA
1 TTAGCGGCGTTTTTAAAAAA-CGCCGCTAAAAATCGAGCA
* * *
666382 TTAGCGGTGTTTTTTAGAAAAGCGCCGCAAAAAA
1 TTAGCGGCG-TTTTTA-AAAAACGCCGCTAAAAA
666416 CCTAAGCCCA
Statistics
Matches: 98, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
39 22 0.22
40 60 0.61
41 13 0.13
42 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAACGCCGCTAAAAATCGAGCA
Found at i:666511 original size:41 final size:41
Alignment explanation
Indices: 666454--666589 Score: 254
Period size: 41 Copynumber: 3.3 Consensus size: 41
666444 CTTTCGGGGA
* *
666454 TTTAGCGGCGTTTTTGGAAAAGCGCCACTAATGTTCAGAGC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAGC
666495 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAGC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAGC
666536 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAGC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAGC
666577 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
666590 NNNNNNNNNN
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAGC
Found at i:666918 original size:7 final size:7
Alignment explanation
Indices: 666906--666967 Score: 79
Period size: 7 Copynumber: 8.9 Consensus size: 7
666896 TAATGTTTAT
666906 GGGTTAG
1 GGGTTAG
*
666913 GGGTTAT
1 GGGTTAG
666920 GGGTTAG
1 GGGTTAG
*
666927 GGGTTGG
1 GGGTTAG
666934 GGGTTAG
1 GGGTTAG
**
666941 TAGTTAG
1 GGGTTAG
666948 GGGTTAG
1 GGGTTAG
666955 GGGTTAG
1 GGGTTAG
*
666962 AGGTTA
1 GGGTTA
666968 AAAGTTAGTG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (7 bp):
GGGTTAG
Found at i:667241 original size:22 final size:22
Alignment explanation
Indices: 667216--667262 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
667206 GAGTTATTAT
667216 TTTAAGGCA-TAGGGATTATGTG
1 TTTAAGGCATTAGGGATTATG-G
* *
667238 TTT-AGGGATTATGGATTATGG
1 TTTAAGGCATTAGGGATTATGG
667259 TTTA
1 TTTA
667263 TGGTTTAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.26, C:0.02, G:0.30, T:0.43
Consensus pattern (22 bp):
TTTAAGGCATTAGGGATTATGG
Found at i:667265 original size:14 final size:14
Alignment explanation
Indices: 667225--667269 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
667215 TTTTAAGGCA
667225 TAGGGATTATGTGTT
1 TAGGGATTATG-GTT
*
667240 TAGGGATTATGGAT
1 TAGGGATTATGGTT
* *
667254 TATGGTTTATGGTT
1 TAGGGATTATGGTT
667268 TA
1 TA
667270 AGGGTTGGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (14 bp):
TAGGGATTATGGTT
Found at i:667314 original size:14 final size:15
Alignment explanation
Indices: 667288--667331 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
667278 GGTTTAAGCA
667288 GGTTTAGGGGTTA-G
1 GGTTTAGGGGTTATG
* *
667302 GGGTTATGGGTTATG
1 GGTTTAGGGGTTATG
*
667317 GGTTTAGGGTTTATG
1 GGTTTAGGGGTTATG
667332 TTTTATGATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.14, C:0.00, G:0.45, T:0.41
Consensus pattern (15 bp):
GGTTTAGGGGTTATG
Found at i:667326 original size:7 final size:7
Alignment explanation
Indices: 667237--667380 Score: 62
Period size: 7 Copynumber: 19.9 Consensus size: 7
667227 GGGATTATGT
667237 GTTTAGG
1 GTTTAGG
* *
667244 GATTATG
1 GTTTAGG
* *
667251 GATTATG
1 GTTTAGG
*
667258 GTTTATG
1 GTTTAGG
667265 GTTTAAGG
1 GTTT-AGG
*
667273 G-TTGGG
1 GTTTAGG
667279 GTTTAAGCAG
1 GTTT-AG--G
667289 GTTTAGG
1 GTTTAGG
*
667296 GGTTAGG
1 GTTTAGG
*
667303 GGTTATGG
1 GTTTA-GG
667311 G-TTATGG
1 GTTTA-GG
667318 GTTTAGG
1 GTTTAGG
*
667325 GTTTATG
1 GTTTAGG
* *
667332 TTTTATG
1 GTTTAGG
*
667339 ATTTAGG
1 GTTTAGG
667346 GTTTAGG
1 GTTTAGG
*
667353 AGATT-GG
1 -GTTTAGG
667360 AG-TTAGGG
1 -GTTTA-GG
667368 GTTTAGG
1 GTTTAGG
667375 GTTTAG
1 GTTTAG
667381 ATTAATTGGT
Statistics
Matches: 113, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
6 5 0.04
7 83 0.73
8 18 0.16
9 2 0.02
10 5 0.04
ACGTcount: A:0.19, C:0.01, G:0.39, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:671763 original size:7 final size:7
Alignment explanation
Indices: 671751--671775 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
671741 TTATAGTGTG
671751 TTTGGAA
1 TTTGGAA
671758 TTTGGAA
1 TTTGGAA
671765 TTTGGAA
1 TTTGGAA
671772 TTTG
1 TTTG
671776 AAGCAAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (7 bp):
TTTGGAA
Found at i:672673 original size:43 final size:43
Alignment explanation
Indices: 672608--672860 Score: 276
Period size: 43 Copynumber: 5.9 Consensus size: 43
672598 TTTTTTGCAG
* * **
672608 AAGCGCCGCAAAAGGTCATGATCTTTAGCGGCGTTTATGGGAA
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTAAGAA
* *
672651 AAGTGCCGCTAAAGGTCATGATCTTTTAGCGGCGTTTGTAATAA
1 AAGCGCCGCTAAAGGTCATGATC-TTTAGCGGCGTTTGTAAGAA
** * *
672695 AAGCATCGCTAAAGGTCCTGACCTTTAGCGGCGTTTGTAAGAA
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTAAGAA
* * **
672738 AAGCGCCGCTAAAGGTCCTAGA-GTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCAT-GATCTTTAGCGGCGTTTGTAAGAA
* ***
672781 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTT-TTTTAA
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTAAGAA
* * * *
672823 AAGTGCCGCTAAAAGTCATGACCTTTAGCTGCGTTTGT
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGT
672861 TTCTAAAAAC
Statistics
Matches: 178, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
42 35 0.20
43 107 0.60
44 36 0.20
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTAAGAA
Found at i:672779 original size:130 final size:128
Alignment explanation
Indices: 672608--672860 Score: 346
Period size: 130 Copynumber: 2.0 Consensus size: 128
672598 TTTTTTGCAG
*
672608 AAGCGCCGCAAAAGGTCATGATCTTTAGCGGCGTTTATGGGAAAAGTGCCGCTAAAGGTCATGAT
1 AAGCGCCGCAAAAGGTCATGATCTTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCATGAT
* * *
672673 CTTTTAGCGGCGTTTGTAATAAAAGCATCGCTAAAGGTCCTGACCTTTAGCGGCGTTTGTAAGAA
66 C-TTTAGCGGCGTTT-TAATAAAAGCACCGCTAAAAGTCATGACCTTTAGCGGCGTTTGTAAGAA
* * * * *
672738 AAGCGCCGCTAAAGGTCCTAGA-GTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGG
1 AAGCGCCGCAAAAGGTCAT-GATCTTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCATGA
** ** *
672802 TCTTTAGCGGCGTTTTTTTAAAAGTGCCGCTAAAAGTCATGACCTTTAGCTGCGTTTGT
65 TCTTTAGCGGCGTTTTAATAAAAGCACCGCTAAAAGTCATGACCTTTAGCGGCGTTTGT
672861 TTCTAAAAAC
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
128 36 0.33
129 13 0.12
130 57 0.53
131 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (128 bp):
AAGCGCCGCAAAAGGTCATGATCTTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCATGAT
CTTTAGCGGCGTTTTAATAAAAGCACCGCTAAAAGTCATGACCTTTAGCGGCGTTTGTAAGAA
Found at i:673112 original size:24 final size:24
Alignment explanation
Indices: 673085--673133 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
673075 ATCTTCACAA
673085 TCACATGTATAAGCTTAGACAAAG
1 TCACATGTATAAGCTTAGACAAAG
673109 TCACATGTATAAGCTTAGACAAAG
1 TCACATGTATAAGCTTAGACAAAG
673133 T
1 T
673134 TGTATAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (24 bp):
TCACATGTATAAGCTTAGACAAAG
Found at i:673139 original size:20 final size:21
Alignment explanation
Indices: 673089--673140 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 21
673079 TCACAATCAC
673089 ATGTATAAGCTTAGACAAAGT
1 ATGTATAAGCTTAGACAAAGT
673110 CACATGTATAAGCTTAGACAAAGT
1 ---ATGTATAAGCTTAGACAAAGT
673134 -TGTATAA
1 ATGTATAA
673141 AGAAAACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.25
24 21 0.75
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATAAGCTTAGACAAAGT
Found at i:676246 original size:25 final size:25
Alignment explanation
Indices: 676218--676269 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
676208 TAAAACTATG
676218 TTTAT-GAATA-TAAATTATAAAATAA
1 TTTATAGAATATTAAATTA-AAAA-AA
676243 TTTATAGAATATTAAATTAAAAAAA
1 TTTATAGAATATTAAATTAAAAAAA
676268 TT
1 TT
676270 ATTAACAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 9 0.36
26 9 0.36
27 7 0.28
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
TTTATAGAATATTAAATTAAAAAAA
Found at i:679376 original size:26 final size:26
Alignment explanation
Indices: 679326--679376 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
679316 AGTTCTTCAT
* * *
679326 TACTTTTTAGAAGTGTTGTTGAAAAG
1 TACTTTTGAGAAGTATTGTTAAAAAG
*
679352 TACTTTTGAGAAGTATTTTTAAAAA
1 TACTTTTGAGAAGTATTGTTAAAAA
679377 ATTTGAGTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.43
Consensus pattern (26 bp):
TACTTTTGAGAAGTATTGTTAAAAAG
Found at i:681021 original size:19 final size:19
Alignment explanation
Indices: 680997--681035 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
680987 GTGGTGGAGA
*
680997 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
681016 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
681035 A
1 A
681036 CCAGCAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.23, G:0.26, T:0.00
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:681035 original size:25 final size:25
Alignment explanation
Indices: 681007--681135 Score: 213
Period size: 25 Copynumber: 5.2 Consensus size: 25
680997 AGAGGAACAA
681007 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
681032 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* *
681057 TGCACCAGTAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
*
681082 AGCACCAGCAGAAGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* *
681107 AGCACCAGCAGAGGATCAAAGAAGC
1 AGCACCAGCAGAGGAACAAAGAACC
681132 AGCA
1 AGCA
681136 GAGAAACAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 96 1.00
ACGTcount: A:0.47, C:0.26, G:0.24, T:0.02
Consensus pattern (25 bp):
AGCACCAGCAGAGGAACAAAGAACC
Found at i:681083 original size:44 final size:44
Alignment explanation
Indices: 681035--681153 Score: 139
Period size: 50 Copynumber: 2.6 Consensus size: 44
681025 AAGAACCAGC
* *
681035 ACCAGCAGAGGAACAAAGAACCTGCACCAGTAGAGGAACAAAGA
1 ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAACAAAGA
*
681079 ACCAGCACCAGCAGAAGAACAAAGAACCAGCACCAGCAGAGGATCAAAGA
1 ACCAG---CAG-AG--GAACAAAGAACCAGCACCAGCAGAGGAACAAAGA
* *
681129 AGCAGCAGAGAAACAAAGAACCAGC
1 ACCAGCAGAGGAACAAAGAACCAGC
681154 GATGAGAGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
44 19 0.30
46 2 0.03
47 6 0.09
48 2 0.03
50 35 0.55
ACGTcount: A:0.49, C:0.25, G:0.24, T:0.03
Consensus pattern (44 bp):
ACCAGCAGAGGAACAAAGAACCAGCACCAGCAGAGGAACAAAGA
Found at i:681136 original size:19 final size:19
Alignment explanation
Indices: 681110--681153 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
681100 AAGAACCAGC
* *
681110 ACCAGCAGAGGATCAAAGA
1 ACCAGCAGAGAAACAAAGA
*
681129 AGCAGCAGAGAAACAAAGA
1 ACCAGCAGAGAAACAAAGA
681148 ACCAGC
1 ACCAGC
681154 GATGAGAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.23, G:0.25, T:0.02
Consensus pattern (19 bp):
ACCAGCAGAGAAACAAAGA
Found at i:681712 original size:28 final size:28
Alignment explanation
Indices: 681649--681712 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
681639 CAATAAAAGC
681649 CCTTTTTTTCAAAATTTACTGAAATGGG
1 CCTTTTTTTCAAAATTTACTGAAATGGG
* * *
681677 CCTATTTTTT-AATTATTTACTGGAATGGT
1 CCT-TTTTTTCAA-AATTTACTGAAATGGG
681706 CCTTTTT
1 CCTTTTT
681713 CGGGAAATCG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 9 0.29
29 22 0.71
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.50
Consensus pattern (28 bp):
CCTTTTTTTCAAAATTTACTGAAATGGG
Found at i:681959 original size:22 final size:22
Alignment explanation
Indices: 681934--682026 Score: 78
Period size: 22 Copynumber: 3.9 Consensus size: 22
681924 ATTTCCTCTC
681934 AATTCCTCTCAATTTCCTTCCA
1 AATTCCTCTCAATTTCCTTCCA
* *
681956 AATTTCTCTCAATTTCCTTCTAA
1 AATTCCTCTCAATTTCCTTC-CA
* *
681979 AATTCTCTCAAACTCATATTTCATTTCA
1 AATTC-CT----CTCA-ATTTCCTTCCA
*
682007 ATTTCCTCTCAATTTCCTTC
1 AATTCCTCTCAATTTCCTTC
682027 TAAAATTATT
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
22 26 0.47
23 9 0.16
24 2 0.04
27 2 0.04
28 9 0.16
29 7 0.13
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTCCTCTCAATTTCCTTCCA
Found at i:682016 original size:51 final size:50
Alignment explanation
Indices: 681956--682073 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 50
681946 TTTCCTTCCA
* *
681956 AATTTCTCTCAATTTCCTTCTAAAATTCTCTCAAA-CTCATATTTCATTTC
1 AATTTCTCTCAATTTCCTTCTAAAATTATCTCAAATC-CATATTTAATTTC
*
682006 AATTTCCTCTCAATTTCCTTCTAAAATTATTTCAAATCCATATTTAATTTC
1 AATTT-CTCTCAATTTCCTTCTAAAATTATCTCAAATCCATATTTAATTTC
*
682057 AATTTTCTCTAAATTTC
1 AA-TTTCTCTCAATTTC
682074 TGTTTTTAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
50 5 0.08
51 52 0.85
52 4 0.07
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (50 bp):
AATTTCTCTCAATTTCCTTCTAAAATTATCTCAAATCCATATTTAATTTC
Found at i:683228 original size:7 final size:7
Alignment explanation
Indices: 683216--683240 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
683206 AGTCGATTGA
683216 TATTTAG
1 TATTTAG
683223 TATTTAG
1 TATTTAG
683230 TATTTAG
1 TATTTAG
683237 TATT
1 TATT
683241 ATGTACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:683904 original size:18 final size:18
Alignment explanation
Indices: 683878--683912 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
683868 AGGTGCGTTT
*
683878 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
683896 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
683913 TCATTTTCCG
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:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:684343 original size:25 final size:25
Alignment explanation
Indices: 684314--684451 Score: 126
Period size: 25 Copynumber: 5.7 Consensus size: 25
684304 TATTTAAATA
*
684314 TTATTTGATGCAATAAAATAGAATT
1 TTATTTGATGTAATAAAATAGAATT
*
684339 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAATT
*
684364 TTATTTGAAGTAATAAAATAGAAATT
1 TTATTTGATGTAATAAAATAG-AATT
* * ** *
684390 TT-TTCGA-GT--T--ATTTTAATA
1 TTATTTGATGTAATAAAATAGAATT
* **
684409 TTATTTGATGAAATAAAATAGACGT
1 TTATTTGATGTAATAAAATAGAATT
684434 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
684452 ACTCTAACCT
Statistics
Matches: 88, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
19 5 0.06
20 6 0.07
21 1 0.01
22 1 0.01
23 1 0.01
24 2 0.02
25 67 0.76
26 5 0.06
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.42
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAATT
Found at i:684477 original size:13 final size:13
Alignment explanation
Indices: 684459--684502 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
684449 AAAACTCTAA
684459 CCTAATTAAATAC
1 CCTAATTAAATAC
684472 CCTAATTAAATAC
1 CCTAATTAAATAC
*
684485 CCTAATTAAAAAC
1 CCTAATTAAATAC
684498 CCTAA
1 CCTAA
684503 CCCTAACCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (13 bp):
CCTAATTAAATAC
Found at i:684535 original size:61 final size:53
Alignment explanation
Indices: 684495--684654 Score: 213
Period size: 56 Copynumber: 3.0 Consensus size: 53
684485 CCTAATTAAA
684495 AACCCTAACCCTAACCCTAACCTAAATTAATTCAAAACCCTAATTAAAAACCCT
1 AACCCTAACCCTAA-CCTAACCTAAATTAATTCAAAACCCTAATTAAAAACCCT
* *
684549 AACCCTAACCTTAATCCTAACCTAAACCCTAATTCAAAACCCTAATTAAAAACCCT
1 AACCCTAACCCTAA-CCTAACCTAAA--TTAATTCAAAACCCTAATTAAAAACCCT
* *
684605 AACCCTAA--C---CCTAACCTAAATTAATTCAAAAACCTAATTAAATACCCT
1 AACCCTAACCCTAACCTAACCTAAATTAATTCAAAACCCTAATTAAAAACCCT
684653 AA
1 AA
684655 TTAAAAACCC
Statistics
Matches: 97, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
48 27 0.28
50 11 0.11
54 24 0.25
56 35 0.36
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (53 bp):
AACCCTAACCCTAACCTAACCTAAATTAATTCAAAACCCTAATTAAAAACCCT
Found at i:684541 original size:48 final size:48
Alignment explanation
Indices: 684474--684654 Score: 247
Period size: 48 Copynumber: 3.6 Consensus size: 48
684464 TTAAATACCC
684474 TAATT-AAATACCCTAATTAAAAACCCTAACCCTAACCCTAACCTAAAT
1 TAATTCAAA-ACCCTAATTAAAAACCCTAACCCTAACCCTAACCTAAAT
*
684522 TAATTCAAAACCCTAATTAAAAACCCTAACCCTAACCTTAATCCTAACCTAAACCC
1 TAATTCAAAACCCTAATTAAAAACCCTAACCCTAA-C-----CCTAACCTAAA--T
684578 TAATTCAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCTAAAT
1 TAATTCAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCTAAAT
* *
684626 TAATTCAAAAACCTAATTAAATACCCTAA
1 TAATTCAAAACCCTAATTAAAAACCCTAA
684655 TTAAAAACCC
Statistics
Matches: 120, Mismatches: 4, Indels: 18
0.85 0.03 0.13
Matches are distributed among these distances:
48 58 0.48
49 4 0.03
50 11 0.09
54 11 0.09
55 1 0.01
56 35 0.29
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (48 bp):
TAATTCAAAACCCTAATTAAAAACCCTAACCCTAACCCTAACCTAAAT
Found at i:684589 original size:43 final size:42
Alignment explanation
Indices: 684501--684593 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 42
684491 TAAAAACCCT
*
684501 AACCCTAACCCTAACCTAAATTAATTCAAAACCCTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATCCAAAACCCTAATTAAA
* * *
684543 AACCCTAACCCTAACCTTAATCCTAA-CCTAAACCCTAATTCAA
1 AACCCTAACCCTAACCTAAAT--TAATCCAAAACCCTAATTAAA
684586 AACCCTAA
1 AACCCTAA
684594 TTAAAAACCC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
42 20 0.44
43 22 0.49
44 3 0.07
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (42 bp):
AACCCTAACCCTAACCTAAATTAATCCAAAACCCTAATTAAA
Found at i:684590 original size:13 final size:13
Alignment explanation
Indices: 684572--684667 Score: 67
Period size: 13 Copynumber: 7.7 Consensus size: 13
684562 ATCCTAACCT
684572 AAACCCTAATTCA
1 AAACCCTAATTCA
*
684585 AAACCCTAATTAA
1 AAACCCTAATTCA
* *
684598 AAACCCTAA-CCC
1 AAACCCTAATTCA
* * *
684610 TAACCCTAA-CCT
1 AAACCCTAATTCA
*
684622 AAA--TTAATTCA
1 AAACCCTAATTCA
*
684633 AAAACCTAATT-A
1 AAACCCTAATTCA
*
684645 AATACCCTAATTAA
1 AA-ACCCTAATTCA
684659 AAACCCTAA
1 AAACCCTAA
684668 CCNNNNNNNN
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
10 3 0.05
11 4 0.06
12 15 0.23
13 41 0.62
14 3 0.05
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (13 bp):
AAACCCTAATTCA
Found at i:688651 original size:125 final size:126
Alignment explanation
Indices: 688425--688777 Score: 467
Period size: 126 Copynumber: 2.8 Consensus size: 126
688415 CCCAAACATG
* * ***
688425 CTACTGTAGCAAAATCGCGTCCACGACGGTTTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *** *
688490 TAGAAGCGATTTTACACTATTTACTCAGAAACGTCAACCCAA-AATTATTTTTTCCGGGAC
66 TAGAAGCGATTTTATACTATTTACTCAAAAACGTCAAAAAAATAATTATTTCTTCCGGGAC
* * *
688550 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATATCACAAATTCTTCTCAAACAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * *
688615 TACAAGCGATTTTATACTATTTTCTCAAAAATGTCAAAAAAATAATTATTTCTTCCGTGAC
66 TAGAAGCGATTTTATACTATTTACTCAAAAACGTCAAAAAAATAATTATTTCTTCCGGGAC
* * * *
688676 CTACTGTAGCAAAAGCGTGTCCACGAGGGCACGATTTCATAAATTCTTCTTAAATGGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
688741 TAGAAGCGAATTTATACTATTTGA-TCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTT-ACTCAAAAACGTCAA
688778 CTCGAAATAT
Statistics
Matches: 197, Mismatches: 29, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
125 92 0.47
126 105 0.53
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTACTCAAAAACGTCAAAAAAATAATTATTTCTTCCGGGAC
Found at i:689888 original size:23 final size:23
Alignment explanation
Indices: 689860--689904 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
689850 TTTCAAAATT
*
689860 TTAAAATAAACAATATATATGAG
1 TTAAAACAAACAATATATATGAG
*
689883 TTAAAACAAATAATATATATGA
1 TTAAAACAAACAATATATATGA
689905 ATGTACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAAACAAACAATATATATGAG
Found at i:690049 original size:69 final size:69
Alignment explanation
Indices: 689975--690128 Score: 172
Period size: 69 Copynumber: 2.2 Consensus size: 69
689965 ATAATATATA
* * *
689975 ATAAATTTGAAATAATAATACAT-ATAAAATTTAAAAATTTTGATGAT-AATTCTAGAA-TA-AT
1 ATAAATTTAAAATAATAATACATAAT-AAATTTAAAAATGTTAATGATAAATT-T-GAAGTAGAT
*
690036 CATACGTG
63 -ATACATG
** * *
690044 ATAAATCCAAAATAATAGTATATAATAAATTTAAAAATGTTAATGATAAATTTGAAGTAGATATA
1 ATAAATTTAAAATAATAATACATAATAAATTTAAAAATGTTAATGATAAATTTGAAGTAGATATA
690109 CATG
66 CATG
690113 ATAAATTTAAAATAAT
1 ATAAATTTAAAATAAT
690129 GTTAACAATG
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
68 3 0.04
69 60 0.85
70 8 0.11
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (69 bp):
ATAAATTTAAAATAATAATACATAATAAATTTAAAAATGTTAATGATAAATTTGAAGTAGATATA
CATG
Found at i:690079 original size:24 final size:24
Alignment explanation
Indices: 690042--690252 Score: 84
Period size: 24 Copynumber: 9.0 Consensus size: 24
690032 TAATCATACG
**
690042 TGATAAATCCAAAATAATAGTATA
1 TGATAAATTTAAAATAATAGTATA
*
690066 TAATAAATTT-AAA-AAT-GT-TAA
1 TGATAAATTTAAAATAATAGTAT-A
* * *
690087 TGATAAATTTGAAGTAGATA-TACA
1 TGATAAATTTAAAATA-ATAGTATA
690111 TGATAAATTTAAAATAAT-GT-TAA
1 TGATAAATTTAAAATAATAGTAT-A
** * * *
690134 CAATGAATTGAAAATAATAATAT-
1 TGATAAATTTAAAATAATAGTATA
** *
690157 TGATAAA-TTACAAATAATAAAAAA
1 TGATAAATTTA-AAATAATAGTATA
* *
690181 TGATAAATCTAAAATAATAATATA
1 TGATAAATTTAAAATAATAGTATA
** * * * *
690205 CAATACACTT-AGATAATATTA-A
1 TGATAAATTTAAAATAATAGTATA
*
690227 TGATTAATTTAATAATAATAAGTATA
1 TGATAAATTTAA-AATAAT-AGTATA
690253 AACATTCAAA
Statistics
Matches: 133, Mismatches: 37, Indels: 32
0.66 0.18 0.16
Matches are distributed among these distances:
20 1 0.01
21 12 0.09
22 13 0.10
23 46 0.35
24 54 0.41
25 6 0.05
26 1 0.01
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.34
Consensus pattern (24 bp):
TGATAAATTTAAAATAATAGTATA
Found at i:691546 original size:44 final size:43
Alignment explanation
Indices: 691418--691591 Score: 118
Period size: 44 Copynumber: 3.9 Consensus size: 43
691408 GCTTTAATCT
* * * * ** *
691418 GCTCCACTGCAACTTCAGGGAGACAAGATTCTCCATCCTCAGTCT
1 GCTCCACTGCAACTTCAAGGAGATAAGATTGT--ATCTTCAACCG
* * * * * * *
691463 ACTCCACTACAACTTCAGGGAGATAACACTTGTAACTTCAATCT
1 GCTCCACTGCAACTTCAAGGAGATAAGA-TTGTATCTTCAACCG
691507 G-TCCCACTGCAACTTCAAGGAGATAAGATTGATATCTTCAACCG
1 GCT-CCACTGCAACTTCAAGGAGATAAGATTG-TATCTTCAACCG
* *
691551 GCTCCACTGTAACTTC-AGTGAGATAAGGTTGGTTATCTTCA
1 GCTCCACTGCAACTTCAAG-GAGATAAGATT-G-TATCTTCA
691592 GTCTTGATCT
Statistics
Matches: 105, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
43 6 0.06
44 62 0.59
45 34 0.32
46 3 0.03
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAAGGAGATAAGATTGTATCTTCAACCG
Found at i:691886 original size:132 final size:131
Alignment explanation
Indices: 691689--692225 Score: 745
Period size: 132 Copynumber: 4.1 Consensus size: 131
691679 GATTCACTGC
* * *
691689 CTTCGATCTGCTCCACTACTGCTTAGGGATACAGGATCTACAATCTTCTACCTACTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTGCTG
* * *
691754 CTCAGGGAGAAAGGATTGGTGGTTTAAATCTGCTTCCCTACTACCTTGGGAAGATAGGATTTGCT
66 CTCAGGGAGAAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTTGCT
691819 A
131 A
* * *
691820 CATTCGATCTGCTCCACGACTGCTTAGGGAGACAAGATTTACAATCTTCAACCTACTCCACCGCT
1 C-TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTGCT
* * *
691885 GCTCAGGGAGATAGGACTGATGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAGGATTTGC
65 GCTCAGGGAGAAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTTGC
*
691950 TGC
130 T-A
* *
691953 CTTCGATCTGCTCCACTACTGTTTAGGGAGACATGATCTACAATCTTCAACCTACTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTGCTG
* * * *
692018 CTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTTACC
66 CTCAGGGAGAAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTTGCT
692083 A
131 A
* * * * *
692084 TCTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGATTTACAATCTTTAACCTATTCTACTGCT
1 -CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTGCT
* * * *
692149 GCTCAGGGAGATAA-GATTAGTGGCTTAAAT-TCGCTTCCCTACTACCTTGGGAAAATAAGATTG
65 GCTCAGGGAGA-AAGGACTGGTGGCTTAAATCT-GCTTCCCTACTACCTTGGGAAGATAAGATTT
*
692212 GCCA
128 GCTA
692216 TCTTCGATCT
1 -CTTCGATCT
692226 ACTGCGCTAC
Statistics
Matches: 364, Mismatches: 37, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
131 2 0.01
132 360 0.99
133 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (131 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTGCTG
CTCAGGGAGAAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTTGCT
A
Found at i:692131 original size:44 final size:44
Alignment explanation
Indices: 691689--692131 Score: 195
Period size: 44 Copynumber: 10.1 Consensus size: 44
691679 GATTCACTGC
* * * *
691689 CTTCGATCTGCTCCACTACTGCTTAGGGATACAGGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATTTACAAT
* * * * * * *****
691733 CTTCTACCTACTCCACTGCTGCTCAGGGAGAAAGGATTGGTGGT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATTTACAAT
* * * *
691777 -TTAAATCTGCTTCC-CTACTACCTT-GGGAAGATAGGATTTGCTA-
1 CTTCAATCTGC-TCCACTACT-GCTTAGGG-AGATAGGATTTACAAT
* * * *
691820 CATTCGATCTGCTCCACGACTGCTTAGGGAGACAAGATTTACAAT
1 C-TTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATTTACAAT
* * ** * * * ***
691865 CTTCAACCTACTCCACCGCTGCTCAGGGAGATAGGACTGA-TGG
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATTTACAAT
* * * ***
691908 CTTAAATCTGCTTCC-CTACTACCTT-GGGAAGATAGGATTTGCTGC
1 CTTCAATCTGC-TCCACTACT-GCTTAGGG-AGATAGGATTTACAAT
* * * * *
691953 CTTCGATCTGCTCCACTACTGTTTAGGGAGACATGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATTTACAAT
* * * * *****
691997 CTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGA-CTGGTGG
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATTTACAAT
* * * *
692040 CTTAAATCTGCTTCC-CTACTACCTT-GGGAAGATAAGATTTACCAT
1 CTTCAATCTGC-TCCACTACT-GCTTAGGG-AGATAGGATTTACAAT
* *
692085 CTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGATTTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATTTACAAT
692129 CTT
1 CTT
692132 TAACCTATTC
Statistics
Matches: 283, Mismatches: 96, Indels: 40
0.68 0.23 0.10
Matches are distributed among these distances:
43 44 0.16
44 185 0.65
45 54 0.19
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATTTACAAT
Found at i:692264 original size:45 final size:45
Alignment explanation
Indices: 692215--693325 Score: 760
Period size: 45 Copynumber: 25.0 Consensus size: 45
692205 AAGATTGGCC
* *
692215 ATCTTCGATCTACTGCGCTACCAGTACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* *
692260 ATCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* ** * * *
692305 ATCTTTGATCTACTTTACTGCTAATACAGGAAGACAAAATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* ** * * * * * *
692350 ATTTTTTTAACCTACTCCACTG-CTGCT-CAGGGAGACAAG-GCTTG-T
1 A--TCTTCGATCTACTTCGCTGCCAG-TACAGGAAGACAAGATC-TGCT
* * *
692395 GA-CTTCGATCTACTTCGCTTCCAATACAGGAAGACAAGATCTACT
1 -ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* * *
692440 ATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGGTCTGCT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
*
692485 ATCTTCGATCTACTTCGCTGCCAGTACAGGAATACAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* * * * * * **
692530 ATTTTCAACCTACTCTACTGCTG-C--T-CAGGGAGATAAG-GCTGGG
1 ATCTTCGATCTACT-T-C-GCTGCCAGTACAGGAAGACAAGATCTGCT
* * * *
692573 ATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* * *
692618 ATCTTCGTTCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* * * * * * **
692663 ATTTTCAACCTACTCTACTGCTG-C--T-CAGGGAGATAAG-GCTGGG
1 ATCTTCGATCTACT-T-C-GCTGCCAGTACAGGAAGACAAGATCTGCT
* * * *
692706 ATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* * *
692751 ATCTTCGTTCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* * * * * * **
692796 ATTTTCAACCTACTCTACTGCTG-C--T-CAGGGAGATAAG-GCTGGG
1 ATCTTCGATCTACT-T-C-GCTGCCAGTACAGGAAGACAAGATCTGCT
* * * *
692839 ATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* * *
692884 ATCTTCGTTCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* * * * * * **
692929 ATTTTCAACCTACTCTACTGCTG-C--T-CAGGGAGATAAG-GCTGGG
1 ATCTTCGATCTACT-T-C-GCTGCCAGTACAGGAAGACAAGATCTGCT
* * *
692972 ATCTTCGATCTACTTTGCTGCCAATACAGAAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* * * * * * *
693017 ATTTTCAACCTACTCTACTGCTG-C--T-CAGGGAGATAAGGT-TGGT
1 ATCTTCGATCTACT-T-C-GCTGCCAGTACAGGAAGACAAGATCTGCT
* * *
693060 ATCTTCGATCTACTTTGCTGCCAATACAGAAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* * *
693105 ATCTTTGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* * *
693150 ATCTTTGATCTACTTCGCTTCCAGTACAGGAAGACAAGATCTACT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* * *
693195 ACCTTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTACT
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
* * * * * * * * *
693240 ATTTTC-AACTTAC-TCTACTG-CTGTTCAGGGAGATAAG-GCTGGT
1 ATCTTCGATC-TACTTC-GCTGCCAGTACAGGAAGACAAGATCTGCT
* * * *
693283 ATCTTCGATCTACTTTGCTGCTAGTATAGAAAGACAAGATCTG
1 ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTG
693326 ATAACTTTAC
Statistics
Matches: 811, Mismatches: 199, Indels: 112
0.72 0.18 0.10
Matches are distributed among these distances:
40 17 0.02
41 5 0.01
42 5 0.01
43 101 0.12
44 133 0.16
45 488 0.60
46 18 0.02
47 24 0.03
48 20 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (45 bp):
ATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCT
Found at i:693030 original size:133 final size:133
Alignment explanation
Indices: 692440--693018 Score: 1032
Period size: 133 Copynumber: 4.4 Consensus size: 133
692430 AAGATCTACT
** * * * * * *
692440 ATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGGTCTGCTATCTTCGATCTACTTCGCTG
1 ATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCGCTG
* * *
692505 CCAGTACAGGAATACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCT
66 CCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCT
692570 GGG
131 GGG
692573 ATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCGCTG
1 ATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCGCTG
692638 CCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCT
66 CCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCT
692703 GGG
131 GGG
692706 ATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCGCTG
1 ATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCGCTG
692771 CCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCT
66 CCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCT
692836 GGG
131 GGG
692839 ATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCGCTG
1 ATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCGCTG
692904 CCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCT
66 CCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCT
692969 GGG
131 GGG
* * *
692972 ATCTTCGATCTACTTTGCTGCCAATACAGAAAGACAAGATCTGCTAT
1 ATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTAT
693019 TTTCAACCTA
Statistics
Matches: 432, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
133 432 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (133 bp):
ATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCGCTG
CCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCT
GGG
Found at i:693117 original size:266 final size:265
Alignment explanation
Indices: 692440--693191 Score: 927
Period size: 266 Copynumber: 2.8 Consensus size: 265
692430 AAGATCTACT
** * * * * *
692440 ATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGGTCTGCTATCTTCGATCTACTTCGCTG
1 ATCTTCGATCTACTTTGCTCCCAATACAGAAAGACAAGATCTGCTATCTTCAACCTACTTCGCTG
* * *** ** *
692505 CCAGTACAGGAATACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCT
66 CCA-TACAGGAAGACAAGATCTGCTATCTTCAACCTACTCTACTGCCAATCAGAAAGACAAGGCT
*
692570 GGGATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCG
130 GCGATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCG
692635 CTGCCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAG
195 CTGCCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAG
692700 GCTGGG
260 GCTGGG
* * ***
692706 ATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCGCTG
1 ATCTTCGATCTACTTTGCTCCCAATACAGAAAGACAAGATCTGCTATCTTCAACCTACTTCGCTG
* * *** ** *
692771 CCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCT
66 CC-ATACAGGAAGACAAGATCTGCTATCTTCAACCTACTCTACTGCCAATCAGAAAGACAAGGCT
*
692836 GGGATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCG
130 GCGATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCG
692901 CTGCCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAG
195 CTGCCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAG
692966 GCTGGG
260 GCTGGG
* *
692972 ATCTTCGATCTACTTTGCTGCCAATACAGAAAGACAAGATCTGCTATTTTCAACCTACTCTACTG
1 ATCTTCGATCTACTTTGCTCCCAATACAGAAAGACAAGATCTGCTATCTTCAACCTACT-T-C-G
* * * * * * * *
693037 CTG-C-T-CAGGGAGATAAGGT-TGGTATCTTCGATCTACTTTGCTGCCAATACAGAAAGACAAG
63 CTGCCATACAGGAAGACAAGATCTGCTATCTTCAACCTACTCTACTGCCAAT-CAGAAAGACAAG
* * * * ** * * * * *
693098 ATCTGCTATCTTTGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTATCTTTGATCTAC
127 -GCTGCGATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTAC
* * *
693163 TTCGCTTCCAGTACAGGAAGACAAGATCT
191 TTCGCTGCCAATATAGGAAGACAAGATCT
693192 ACTACCTTCG
Statistics
Matches: 432, Mismatches: 48, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
264 20 0.05
265 19 0.04
266 385 0.89
267 2 0.00
268 2 0.00
269 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (265 bp):
ATCTTCGATCTACTTTGCTCCCAATACAGAAAGACAAGATCTGCTATCTTCAACCTACTTCGCTG
CCATACAGGAAGACAAGATCTGCTATCTTCAACCTACTCTACTGCCAATCAGAAAGACAAGGCTG
CGATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCGC
TGCCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGG
CTGGG
Found at i:693118 original size:88 final size:90
Alignment explanation
Indices: 692239--693241 Score: 578
Period size: 88 Copynumber: 11.3 Consensus size: 90
692229 GCGCTACCAG
* *
692239 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGC
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGC
* **
692304 TATCTTTGATCTACTTTACTGCTAA
66 TATCTTTGATCTACTCTACTGCTGC
* * ** * *** *** * *
692329 TACAGGAAGACAAAATCTGCTATTTTTTTAACCTACTCCACTGCTGCT-CAGGGAGACAAG-GCT
1 TACAGGAAGACAAGATCTGCTA--TCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATC-
* *
692392 TG-TGA-CTTCGATCTACT-T-C-GCTTCC
63 TGCT-ATCTTTGATCTACTCTACTGC-TGC
* ** *
692417 AATACAGGAAGACAAGATCTACTATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGGTCT
1 --TACAGGAAGACAAGATCTGCTATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCT
*
692482 GCTATCTTCGATCTACT-T-C-GCTGCC
64 GCTATCTTTGATCTACTCTACTGCTG-C
* * * * * * *** * * *
692507 AGTACAGGAATACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCT-CAGGGAGATAAG-GCT
1 --TACAGGAAGACAAGATCTGCTATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCT
** * * * * *
692570 GGGATCTTCGATCTACTTTGCTCCCAG-
64 GCTATCTTTGATCTACTCTACT-GCTGC
* * * * *
692597 TACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCGCTGCCAATATAGGAAGACAAGATCTGC
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGC
* *
692662 TAT-TTTCAACCTACTCTACTGCTGC
66 TATCTTT-GATCTACTCTACTGCTGC
* * * ** * * * *
692687 T-CAGGGAGATAAG-GCTGGGATCTTCGATCTACTTTGCTCCCAGTACAGAAAGGCAAGATCTGC
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGC
* *
692750 TATCTTCGTTCTACT-T-C-GCTGCC
66 TATCTTTGATCTACTCTACTGCTG-C
* * * * * * *** * * *
692773 AATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCTACTGCTGCT-CAGGGAGATAAG-GCT
1 --TACAGGAAGACAAGATCTGCTATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCT
** * * * * *
692836 GGGATCTTCGATCTACTTTGCTCCCAG-
64 GCTATCTTTGATCTACTCTACT-GCTGC
* * * * *
692863 TACAGAAAGGCAAGATCTGCTATCTTCGTTCTACTTCGCTGCCAATATAGGAAGACAAGATCTGC
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGC
* *
692928 TAT-TTTCAACCTACTCTACTGCTGC
66 TATCTTT-GATCTACTCTACTGCTGC
* * * ** *
692953 T-CAGGGAGATAAG-GCTGGGATCTTCGATCTACTTTGCTGCCAATACAGAAAGACAAGATCTGC
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGC
* *
693016 TAT-TTTCAACCTACTCTACTGCTGC
66 TATCTTT-GATCTACTCTACTGCTGC
* * * * *
693041 T-CAGGGAGATAAGGT-TGGTATCTTCGATCTACTTTGCTGCCAATACAGAAAGACAAGATCTGC
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGC
693104 TATCTTTGATCTACT-T-C-GCTGTC
66 TATCTTTGATCTACTCTACTGCTG-C
* * * *
693127 AATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCGCTTCCAGTACAGGAAGACAAGATCT
1 --TACAGGAAGACAAGATCTGCTATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCT
* * * *
693192 ACTACCTTCGATCTACT-TCACTGCCAG-
64 GCTATCTTTGATCTACTCT-ACTG-CTGC
*
693219 TACAGGAAGACAAGATCTACTAT
1 TACAGGAAGACAAGATCTGCTAT
693242 TTTCAACTTA
Statistics
Matches: 697, Mismatches: 171, Indels: 90
0.73 0.18 0.09
Matches are distributed among these distances:
85 8 0.01
86 4 0.01
87 4 0.01
88 304 0.44
89 103 0.15
90 238 0.34
91 13 0.02
92 20 0.03
93 1 0.00
94 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (90 bp):
TACAGGAAGACAAGATCTGCTATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTGC
TATCTTTGATCTACTCTACTGCTGC
Found at i:696450 original size:25 final size:25
Alignment explanation
Indices: 696400--696450 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
696390 AAAATCCAAG
* *
696400 AGAATGAAAGAATAATTATTCGAAA
1 AGAATGAAAGAATAATTACTCAAAA
* *
696425 AGAATGAAAGAATATTTGCTCAAAA
1 AGAATGAAAGAATAATTACTCAAAA
696450 A
1 A
696451 TAAATGCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.55, C:0.06, G:0.16, T:0.24
Consensus pattern (25 bp):
AGAATGAAAGAATAATTACTCAAAA
Found at i:698181 original size:17 final size:17
Alignment explanation
Indices: 698155--698189 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
698145 TTCTATGATG
*
698155 AAATGCCATGCAGTCAA
1 AAATGCCATGCAGCCAA
*
698172 AAATGTCATGCAGCCAA
1 AAATGCCATGCAGCCAA
698189 A
1 A
698190 GCAAAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (17 bp):
AAATGCCATGCAGCCAA
Found at i:700586 original size:23 final size:22
Alignment explanation
Indices: 700556--700598 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
700546 GAATTAAATC
700556 TCTAAGATTGCAAAATCTTATAT
1 TCTAAGATTGC-AAATCTTATAT
*
700579 TCTAAGATTGCATATCTTAT
1 TCTAAGATTGCAAATCTTAT
700599 CTAAAATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (22 bp):
TCTAAGATTGCAAATCTTATAT
Found at i:701093 original size:3 final size:3
Alignment explanation
Indices: 701085--701132 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
701075 AGATTCATCT
701085 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
701133 CAACTTTGAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:702341 original size:23 final size:22
Alignment explanation
Indices: 702311--702353 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
702301 GAATTAAATC
702311 TCTAAGATTGCAAAATCTTATAT
1 TCTAAGATTGC-AAATCTTATAT
*
702334 TCTAAGATTGCATATCTTAT
1 TCTAAGATTGCAAATCTTAT
702354 CTAAAATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (22 bp):
TCTAAGATTGCAAATCTTATAT
Found at i:702848 original size:3 final size:3
Alignment explanation
Indices: 702840--702884 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
702830 AGATTCATCT
702840 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
702885 CAACTTTGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:708842 original size:44 final size:43
Alignment explanation
Indices: 708735--709461 Score: 266
Period size: 44 Copynumber: 16.8 Consensus size: 43
708725 AAACTAGTGC
* *
708735 TTTAATCTACTCCACTGCAACTTTCAAGGAGATAAGA-CTAA--A
1 TTTAATCTGCTCCACTGCAAC-TTC-AGGAGATAAGATCTAAGGT
*** * *
708777 TACGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAG-GAGATAAGATCTAAGGT
** * * *
708820 TTTAATCCACTCCACTGCAACTTCAGGAAGATAGGAT-TATCGGG
1 TTTAATCTGCTCCACTGCAACTTCAGG-AGATAAGATCTA-AGGT
*
708864 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTAA--A
1 TTTAATCTGCTCCACTGCAACTTCA-GGAGATAAGATCTAAGGT
*** * * *
708905 TACGATCTGCT-CTCTGCAACTTTAGAGAGATAAGATCCAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAG-GAGATAAGATCTAAGGT
** * * * *
708948 TTTAATCCACTCAACTTACAACTTCAGGA-ATATAGGAT-TATCGGC
1 TTTAATCTGCTCCAC-TGCAACTTCAGGAGATA-A-GATCTA-AGGT
* ****
708993 TTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCAT
1 TTTAATCTGCTCCACTGCAACTTCAGG-AGATAAGATCTAAGGT
** * * * *
709037 TTTCAGCCTGC-CTCACTGCAACTTTAGAAGGACAAGA-CT-A-GA
1 TTT-AATCTGCTC-CACTGCAACTTCAGGA-GATAAGATCTAAGGT
*** *
709079 TGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAG-GAGATAAGATCTAAGGT
** * * **
709122 TTTAATCCCCT-CACTGCAACTTCAGCGAGATAGGAT-TACCGAC
1 TTTAATCTGCTCCACTGCAACTTCAG-GAGATAAGATCTA-AGGT
* * ****
709165 TTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCCAT
1 TTTAATCTGCTCCACTGCAACTTCA-GGAGATAAGATCTAAGGT
* * * *
709209 CTTCAGTCTGC-CTCACTGCAACTTCAGAAGGATAAGA-CTAA--A
1 -TTTAATCTGCTC-CACTGCAACTTCAGGA-GATAAGATCTAAGGT
*** *
709251 TGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAG-GAGATAAGATCTAAGGT
* * * * **
709294 TTTAATCCGCTCC-TTGCAACTTCAGCGAGATAGGAT-TACCGAC
1 TTTAATCTGCTCCACTGCAACTTCAG-GAGATAAGATCTA-AGGT
* * ****
709337 TTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCCAT
1 TTTAATCTGCTCCACTGCAACTTCA-GGAGATAAGATCTAAGGT
* * * * *
709381 CTTCAGTCTGCTTCACTGCAACTTCAGGAGGATAAGA-CT-TGCCT
1 -TTTAATCTGCTCCACTGCAACTTCAGGA-GATAAGATCTAAG-GT
* * *
709425 ACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGA
1 -TTTAATCTGCTCCACTGCAACTTCA-GGAGATAAGA
709462 CTCGATCTGT
Statistics
Matches: 505, Mismatches: 130, Indels: 98
0.69 0.18 0.13
Matches are distributed among these distances:
39 3 0.01
40 70 0.14
41 41 0.08
42 13 0.03
43 95 0.19
44 163 0.32
45 117 0.23
46 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (43 bp):
TTTAATCTGCTCCACTGCAACTTCAGGAGATAAGATCTAAGGT
Found at i:708933 original size:128 final size:129
Alignment explanation
Indices: 708733--709028 Score: 504
Period size: 129 Copynumber: 2.3 Consensus size: 129
708723 GGAAACTAGT
* *
708733 GCTTTAATCTACTCCACTGCAACTTTCAAGGAGATAAGACTAAATACGATCTGCTCTCTGCAACT
1 GCTTTAATCTGCTCCACTGCAAC-TTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACT
* *
708798 TCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCAC-TGCAACTTCAGGAAGATAGGATTATCG
65 TCAGAGAGATAAGATCCAAGGTTTTAATCCACTCAACTTACAACTTCAGGAAGATAGGATTATCG
*
708862 GGTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTT
* *
708927 TAGAGAGATAAGATCCAAGGTTTTAATCCACTCAACTTACAACTTCAGGAATATAGGATTATCG
66 CAGAGAGATAAGATCCAAGGTTTTAATCCACTCAACTTACAACTTCAGGAAGATAGGATTATCG
*
708991 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
709029 TTTGCCATTT
Statistics
Matches: 157, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
128 75 0.48
129 82 0.52
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (129 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTGCTCTCTGCAACTT
CAGAGAGATAAGATCCAAGGTTTTAATCCACTCAACTTACAACTTCAGGAAGATAGGATTATCG
Found at i:709110 original size:85 final size:85
Alignment explanation
Indices: 708997--709419 Score: 331
Period size: 85 Copynumber: 4.9 Consensus size: 85
708987 ATCGGCTTTA
*
708997 ATCTGCTCCACTGCAACTTCAG-GAAGATAAGATTTGCCATTTTCAGCCTGCCTCACTGCAACTT
1 ATCTGCT-CTCTGCAACTTCAGAG-AGATAAGATTTGCCATTTTCAGCCTGCCTCACTGCAACTT
* *
709061 TAGAAGGACAAGACTAGATGCG
64 CAGAAGGATAAGACTAGATGCG
* **** * *
709083 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCC--CCTCACTGCAACTTCA
1 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATTTGCCATTTTCAGCCTGCCTCACTGCAACTTCA
* * * ***
709146 G-CGAGATAGGATTACCGACTTTA
66 GAAG-GATAAGACTA--GA-TGCG
* * *
709169 ATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTC
1 ATCTGCTCT-CTGCAACTTCAGAGAGATAAGATTTGCCATTTTCAGCCTGCCTCACTGCAACTTC
*
709234 AGAAGGATAAGACTAAATGCG
65 AGAAGGATAAGACTAGATGCG
* **** * *
709255 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCC-G-CTC-CTTGCAACTTC
1 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATTTGCCATTTTCAGCCTGCCTCAC-TGCAACTTC
* * * ***
709317 AG-CGAGATAGGATTACCGACTTTA
65 AGAAG-GATAAGACTA--GA-TGCG
* * * *
709341 ATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTTCACTGCAACTTC
1 ATCTGCTCT-CTGCAACTTCAGAGAGATAAGATTTGCCATTTTCAGCCTGCCTCACTGCAACTTC
*
709406 AGGAGGATAAGACT
65 AGAAGGATAAGACT
709420 TGCCTACTTA
Statistics
Matches: 254, Mismatches: 64, Indels: 35
0.72 0.18 0.10
Matches are distributed among these distances:
82 3 0.01
83 45 0.18
84 1 0.00
85 61 0.24
86 38 0.15
87 57 0.22
88 1 0.00
89 45 0.18
90 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (85 bp):
ATCTGCTCTCTGCAACTTCAGAGAGATAAGATTTGCCATTTTCAGCCTGCCTCACTGCAACTTCA
GAAGGATAAGACTAGATGCG
Found at i:709222 original size:172 final size:173
Alignment explanation
Indices: 708876--709419 Score: 862
Period size: 172 Copynumber: 3.2 Consensus size: 173
708866 TAATCTGCTC
* * *
708876 CACTGCAACTTCAG-GGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTTAGAGAGATAAGA
1 CACTGCAACTTCAGAAG-GATAAGACTAAATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGA
* * * * *
708940 TCCAAGGTTTTAATCCACTCAACTTACAACTTCAG-GAATATAGGATTATCGGCTTTAATCTGCT
65 TCTAAGGTTTTAATCCACTC-ACTTGCAACTTCAGCG-AGATAGGATTACCGACTTTAATCTGCT
* * * *
709004 CCACTGCAACTTCAGGAAGATAAGATTTGCCATTTTCAGCCTGCCT
128 CTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
* * *
709050 CACTGCAACTTTAGAAGGACAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
1 CACTGCAACTTCAGAAGGATAAGACTAAATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
*
709115 CTAAGGTTTTAATCCCCTCAC-TGCAACTTCAGCGAGATAGGATTACCGACTTTAATCTGCTCTA
66 CTAAGGTTTTAATCCACTCACTTGCAACTTCAGCGAGATAGGATTACCGACTTTAATCTGCTCTA
709179 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
131 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
709222 CACTGCAACTTCAGAAGGATAAGACTAAATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
1 CACTGCAACTTCAGAAGGATAAGACTAAATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
*
709287 CTAAGGTTTTAATCCGCTC-CTTGCAACTTCAGCGAGATAGGATTACCGACTTTAATCTGCTCTA
66 CTAAGGTTTTAATCCACTCACTTGCAACTTCAGCGAGATAGGATTACCGACTTTAATCTGCTCTA
*
709351 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTT
131 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
*
709394 CACTGCAACTTCAGGAGGATAAGACT
1 CACTGCAACTTCAGAAGGATAAGACT
709420 TGCCTACTTA
Statistics
Matches: 345, Mismatches: 22, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
171 1 0.00
172 266 0.77
173 3 0.01
174 74 0.21
175 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (173 bp):
CACTGCAACTTCAGAAGGATAAGACTAAATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
CTAAGGTTTTAATCCACTCACTTGCAACTTCAGCGAGATAGGATTACCGACTTTAATCTGCTCTA
CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCT
Found at i:717458 original size:24 final size:24
Alignment explanation
Indices: 717429--717474 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
717419 ATCATCTTTT
* *
717429 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
717453 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
717475 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:721318 original size:18 final size:20
Alignment explanation
Indices: 721297--721342 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
721287 AACGAATGAC
*
721297 ATGAAAAAT-A-TCAAATAA
1 ATGAAAAATAAGTAAAATAA
721315 ATGAGCAAAATAAGTAAAATAA
1 ATGA--AAAATAAGTAAAATAA
721337 ATGAAA
1 ATGAAA
721343 TTATGAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 4 0.17
20 7 0.30
21 1 0.04
22 11 0.48
ACGTcount: A:0.65, C:0.04, G:0.11, T:0.20
Consensus pattern (20 bp):
ATGAAAAATAAGTAAAATAA
Found at i:733977 original size:22 final size:22
Alignment explanation
Indices: 733942--734000 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
733932 GAACTTCCTT
*
733942 ATTATTATTTATTTTAAGACTTAG
1 ATTATT-TTAATTTTAAGA-TTAG
733966 A-TATTTTAATTTTTAAGATTAG
1 ATTATTTTAA-TTTTAAGATTAG
*
733988 ATTTTTTTAATTT
1 ATTATTTTAATTT
734001 AATAGGTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 11 0.35
23 19 0.61
24 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (22 bp):
ATTATTTTAATTTTAAGATTAG
Found at i:733979 original size:23 final size:23
Alignment explanation
Indices: 733953--734000 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
733943 TTATTATTTA
733953 TTTTAAGACTTAGA-TATTTTAAT
1 TTTTAAGA-TTAGATTATTTTAAT
*
733976 TTTTAAGATTAGATTTTTTTAAT
1 TTTTAAGATTAGATTATTTTAAT
733999 TT
1 TT
734001 AATAGGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.58
Consensus pattern (23 bp):
TTTTAAGATTAGATTATTTTAAT
Found at i:744059 original size:37 final size:37
Alignment explanation
Indices: 743962--744064 Score: 104
Period size: 36 Copynumber: 2.8 Consensus size: 37
743952 TGAGTAAAGC
* * *
743962 TCAATCAAGCAAATTATATTGTTATACTGAATGGTCT
1 TCAATCGAGCAAATTCTATTGTTATACTGAATGATCT
* ** *
743999 T-AA-CTGAACAAA-TCTTACCGTTATACTGAATGATGT
1 TCAATC-GAGCAAATTC-TATTGTTATACTGAATGATCT
744035 TCAATCGAGCAAATTCTATTGTTATACTGA
1 TCAATCGAGCAAATTCTATTGTTATACTGA
744065 GTGAAGCTCA
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
35 2 0.04
36 25 0.49
37 21 0.41
38 3 0.06
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.36
Consensus pattern (37 bp):
TCAATCGAGCAAATTCTATTGTTATACTGAATGATCT
Found at i:755160 original size:40 final size:42
Alignment explanation
Indices: 755044--755167 Score: 161
Period size: 43 Copynumber: 3.1 Consensus size: 42
755034 GTTTTTATCC
*
755044 TTGAAAAAATAATTT---AAAA-AGAAGATAATCTTGGGTTG
1 TTGAAAAAAGAATTTAAAAAAAGAGAAGATAATCTTGGGTTG
*
755082 TTGAAAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGGTTG
1 TTGAAAAAAGAATTTAAAAA-AAGAGAAGATAATCTTGGGTTG
* *
755125 TTGAAAAAA-AA-TTAAAAAAAGAGAAGATAAACTTGGGCTG
1 TTGAAAAAAGAATTTAAAAAAAGAGAAGATAATCTTGGGTTG
755165 TTG
1 TTG
755168 GATTTACCCT
Statistics
Matches: 76, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
38 14 0.18
40 22 0.29
41 9 0.12
42 3 0.04
43 28 0.37
ACGTcount: A:0.48, C:0.03, G:0.22, T:0.27
Consensus pattern (42 bp):
TTGAAAAAAGAATTTAAAAAAAGAGAAGATAATCTTGGGTTG
Found at i:757801 original size:18 final size:20
Alignment explanation
Indices: 757778--757816 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
757768 GAAAAATGGG
757778 TTTAAGAG-TTT-AAAAGGT
1 TTTAAGAGATTTGAAAAGGT
757796 TTTAAGAGATTTGAAAAGGT
1 TTTAAGAGATTTGAAAAGGT
757816 T
1 T
757817 GAGAGGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
19 3 0.16
20 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (20 bp):
TTTAAGAGATTTGAAAAGGT
Found at i:762233 original size:26 final size:26
Alignment explanation
Indices: 762126--762310 Score: 142
Period size: 26 Copynumber: 7.1 Consensus size: 26
762116 ATGTACCTGA
* * *
762126 TTAGCAGGCCTTGAGCGAGTGTTCAT
1 TTAGCAGGCTTTGAGCTAGTGTTTAT
* *
762152 TTAGTAGGCCTTGAG-TCAGTGTTTAT
1 TTAGCAGGCTTTGAGCT-AGTGTTTAT
* * * ** * *
762178 TTTGTAGGTTTTGAGCCGGTGATTAC
1 TTAGCAGGCTTTGAGCTAGTGTTTAT
* *
762204 TTAGCAGTCTATGAGCTAGTGTTTAT
1 TTAGCAGGCTTTGAGCTAGTGTTTAT
* *
762230 TTAGCAGGCTTTGAG-TCATTGATTAT
1 TTAGCAGGCTTTGAGCT-AGTGTTTAT
* * *
762256 TTAGCTGGCTTTGAGC-CGTTGTTTAC
1 TTAGCAGGCTTTGAGCTAG-TGTTTAT
*
762282 TTAGCAGGCTTTGAGCCAGTGTTTAT
1 TTAGCAGGCTTTGAGCTAGTGTTTAT
762308 TTA
1 TTA
762311 ACAAACATTG
Statistics
Matches: 122, Mismatches: 31, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
25 1 0.01
26 120 0.98
27 1 0.01
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.41
Consensus pattern (26 bp):
TTAGCAGGCTTTGAGCTAGTGTTTAT
Found at i:762256 original size:78 final size:78
Alignment explanation
Indices: 762126--762310 Score: 221
Period size: 78 Copynumber: 2.4 Consensus size: 78
762116 ATGTACCTGA
* * * * * *
762126 TTAGCAGGCCT-TGAGCGAGTGTTCATTTAGTAGGCCTTGAGTCAGTGTTTATTTTG-TAGGTTT
1 TTAGCAGG-CTATGAGCCAGTGTTTATTTAGCAGGCCTTGAGTCAGTGATTATTTAGCT-GGCTT
762189 TGAGCCGGTGATTAC
64 TGAGCCGGTGATTAC
* * * *
762204 TTAGCAGTCTATGAGCTAGTGTTTATTTAGCAGGCTTTGAGTCATTGATTATTTAGCTGGCTTTG
1 TTAGCAGGCTATGAGCCAGTGTTTATTTAGCAGGCCTTGAGTCAGTGATTATTTAGCTGGCTTTG
* *
762269 AGCCGTTGTTTAC
66 AGCCGGTGATTAC
*
762282 TTAGCAGGCTTTGAGCCAGTGTTTATTTA
1 TTAGCAGGCTATGAGCCAGTGTTTATTTA
762311 ACAAACATTG
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
77 2 0.02
78 88 0.97
79 1 0.01
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.41
Consensus pattern (78 bp):
TTAGCAGGCTATGAGCCAGTGTTTATTTAGCAGGCCTTGAGTCAGTGATTATTTAGCTGGCTTTG
AGCCGGTGATTAC
Found at i:762308 original size:52 final size:51
Alignment explanation
Indices: 762126--762310 Score: 167
Period size: 52 Copynumber: 3.6 Consensus size: 51
762116 ATGTACCTGA
* * *
762126 TTAGCAGGCCTTGAGCGAGTG-TTCATTTAG-TAGGCCTTGAGTCAGTGTTTAT
1 TTAGCAGGCTTTGAGCCAGTGATT-ATTTAGCT-GGCTTTGAG-CAGTGTTTAT
* * * * * * * *
762178 TTTGTAGGTTTTGAGCCGGTGATTACTTAGCAGTCTATGAGCTAGTGTTTAT
1 TTAGCAGGCTTTGAGCCAGTGATTATTTAGCTGGCTTTGAGC-AGTGTTTAT
* * * *
762230 TTAGCAGGCTTTGAGTCATTGATTATTTAGCTGGCTTTGAGCCGTTGTTTAC
1 TTAGCAGGCTTTGAGCCAGTGATTATTTAGCTGGCTTTGAGCAG-TGTTTAT
*
762282 TTAGCAGGCTTTGAGCCAGTGTTTATTTA
1 TTAGCAGGCTTTGAGCCAGTGATTATTTA
762311 ACAAACATTG
Statistics
Matches: 103, Mismatches: 26, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
51 2 0.02
52 99 0.96
53 2 0.02
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.41
Consensus pattern (51 bp):
TTAGCAGGCTTTGAGCCAGTGATTATTTAGCTGGCTTTGAGCAGTGTTTAT
Found at i:762322 original size:52 final size:52
Alignment explanation
Indices: 762223--762325 Score: 125
Period size: 52 Copynumber: 2.0 Consensus size: 52
762213 TATGAGCTAG
* * * * *** *
762223 TGTTTATTTAGCAGGCTTTGAGTCATTGATTATTTAGCTGGCTTTGAGCCGT
1 TGTTTACTTAGCAGGCTTTGAGCCAGTGATTATTTAACAAACATTGAGCCGT
*
762275 TGTTTACTTAGCAGGCTTTGAGCCAGTGTTTATTTAACAAACATTGAGCCG
1 TGTTTACTTAGCAGGCTTTGAGCCAGTGATTATTTAACAAACATTGAGCCG
762326 GGGAATATAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (52 bp):
TGTTTACTTAGCAGGCTTTGAGCCAGTGATTATTTAACAAACATTGAGCCGT
Found at i:765805 original size:26 final size:26
Alignment explanation
Indices: 765775--765841 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
765765 ATTATGTGAT
* *
765775 AAATGGTTTTATGAAATTACTATATG
1 AAATGGTTTTATGAAATAAATATATG
765801 AAAT-GTTTATATAGAAATAAATATATG
1 AAATGGTTT-TAT-GAAATAAATATATG
*
765828 -AATGGTTATATGAA
1 AAATGGTTTTATGAA
765842 GTGTTTATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
25 7 0.20
26 13 0.37
27 15 0.43
ACGTcount: A:0.45, C:0.01, G:0.15, T:0.39
Consensus pattern (26 bp):
AAATGGTTTTATGAAATAAATATATG
Found at i:765811 original size:13 final size:13
Alignment explanation
Indices: 765795--765856 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
765785 ATGAAATTAC
765795 TATATGAAATGTT
1 TATATGAAATGTT
***
765808 TATATAGAAATAAA
1 TATAT-GAAATGTT
*
765822 TATATG-AATGGT
1 TATATGAAATGTT
*
765834 TATATGAAGTGTT
1 TATATGAAATGTT
*
765847 TATAGGAAAT
1 TATATGAAAT
765857 ATTTGTTGGA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
12 9 0.24
13 18 0.49
14 10 0.27
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.39
Consensus pattern (13 bp):
TATATGAAATGTT
Found at i:765818 original size:27 final size:26
Alignment explanation
Indices: 765775--765841 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
765765 ATTATGTGAT
* *
765775 AAATGGTTT-TATGAAATTACTATATG
1 AAAT-GTTTATATGAAATAAATATATG
765801 AAATGTTTATATAGAAATAAATATATG
1 AAATGTTTATAT-GAAATAAATATATG
*
765828 -AATGGTTATATGAA
1 AAATGTTTATATGAA
765842 GTGTTTATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 7 0.19
26 17 0.47
27 12 0.33
ACGTcount: A:0.45, C:0.01, G:0.15, T:0.39
Consensus pattern (26 bp):
AAATGTTTATATGAAATAAATATATG
Found at i:769677 original size:27 final size:27
Alignment explanation
Indices: 769646--769760 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
769636 CTAATAGATG
* *
769646 AAAATGACTGAAATACCCCTATAGGGT
1 AAAATGACTGAAATACCCCCATAGGAT
*
769673 AAAATGACTGAAATACCCCCATAGGGT
1 AAAATGACTGAAATACCCCCATAGGAT
* *
769700 AAAATGACCT-AAATACCCCTATAAGAT
1 AAAATGA-CTGAAATACCCCCATAGGAT
*
769727 AAAATGAAC-AAAATACCCCCATAGGAT
1 AAAATG-ACTGAAATACCCCCATAGGAT
769754 AAAATGA
1 AAAATGA
769761 TTATTATCCC
Statistics
Matches: 79, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 1 0.01
27 75 0.95
28 3 0.04
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.19
Consensus pattern (27 bp):
AAAATGACTGAAATACCCCCATAGGAT
Found at i:769720 original size:54 final size:54
Alignment explanation
Indices: 769646--769785 Score: 162
Period size: 54 Copynumber: 2.6 Consensus size: 54
769636 CTAATAGATG
* * * *
769646 AAAATGACTGAAATACCCCTATAGGGTAAAATG-ACTGAAATACCCCCATAGGGT
1 AAAATGACTGAAATACCCCTATAAGATAAAATGAAC-AAAATACCCCCATAGGAT
769700 AAAATGACCT-AAATACCCCTATAAGATAAAATGAACAAAATACCCCCATAGGAT
1 AAAATGA-CTGAAATACCCCTATAAGATAAAATGAACAAAATACCCCCATAGGAT
* * * *
769754 AAAATGA-T-TATTATCCCTATGAGATAAAATGA
1 AAAATGACTGAAATACCCCTATAAGATAAAATGA
769786 CTGTTATGGC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
52 21 0.28
54 51 0.67
55 4 0.05
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.22
Consensus pattern (54 bp):
AAAATGACTGAAATACCCCTATAAGATAAAATGAACAAAATACCCCCATAGGAT
Found at i:770163 original size:28 final size:28
Alignment explanation
Indices: 770123--770273 Score: 236
Period size: 28 Copynumber: 5.4 Consensus size: 28
770113 TATTGCACTG
*
770123 CACTGTTACTGTATTGGACTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
770151 CACTGATT-CTGTATTGGGCTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
*
770179 CACTGATT-CTGTATTGAGCTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
770207 CACTGTTACTGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
*
770235 CACTGTTATTGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
770263 CACTG-TACTGT
1 CACTGTTACTGT
770274 CACTGAATAG
Statistics
Matches: 116, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
27 7 0.06
28 107 0.92
29 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (28 bp):
CACTGTTACTGTATTGGGCTAAGGCCCA
Found at i:779844 original size:27 final size:27
Alignment explanation
Indices: 779792--779858 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
779782 AGTTTTTTAG
*
779792 GACTATCTTT-TGTGGAAAGTCTATCAA
1 GACTAT-TTTATGTGGAAAGTCCATCAA
*
779819 GACTATTTTATGTGG-AAGCTCCATCAT
1 GACTATTTTATGTGGAAAG-TCCATCAA
779846 GACTATTTTATGT
1 GACTATTTTATGT
779859 ACTGTCAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 6 0.17
27 30 0.83
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (27 bp):
GACTATTTTATGTGGAAAGTCCATCAA
Found at i:782276 original size:28 final size:28
Alignment explanation
Indices: 782235--782353 Score: 168
Period size: 28 Copynumber: 4.3 Consensus size: 28
782225 CTATTCAGTA
* *
782235 ATAGT-ACAGTGTGGGCCTTAGCTCGAT
1 ATAGTAACAGTGTGGGCCTTAGCCCAAT
*
782262 ATAGTAACTGTGTGGGCCTTAGCCCAAT
1 ATAGTAACAGTGTGGGCCTTAGCCCAAT
782290 ATAGTAACAGTGTGGGCCTTAGCCCAAT
1 ATAGTAACAGTGTGGGCCTTAGCCCAAT
* * *
782318 ACAGTAACAATGTGGGTCTTAGCCCAAT
1 ATAGTAACAGTGTGGGCCTTAGCCCAAT
*
782346 ACAGTAAC
1 ATAGTAAC
782354 CAATACAATG
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 5 0.06
28 79 0.94
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (28 bp):
ATAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:782487 original size:26 final size:26
Alignment explanation
Indices: 782457--782514 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
782447 GCCAACACAC
*
782457 CAATATCGTAGCAAAGCTGCCAGTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
* **
782483 TAATATCGCAGTGAAGCTGCCAGTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
782509 CAATAT
1 CAATAT
782515 ATGTGTCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (26 bp):
CAATATCGCAGCAAAGCTGCCAGTAA
Found at i:782727 original size:27 final size:27
Alignment explanation
Indices: 782707--783080 Score: 321
Period size: 27 Copynumber: 14.0 Consensus size: 27
782697 GGGGTATAAT
782707 AGTCATTTTACCTTATGGGGGTATTTC
1 AGTCATTTTACCTTATGGGGGTATTTC
* * * *
782734 GGTCATTCTACCTAACGGGGGTATTTC
1 AGTCATTTTACCTTATGGGGGTATTTC
*
782761 AGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCTTATGGGGGTATTTC
782788 AGTCATTTTACC-TATGGGGGTATTTC
1 AGTCATTTTACCTTATGGGGGTATTTC
* * **
782814 AGTCATTCTACCATACAGGGGTATTTC
1 AGTCATTTTACCTTATGGGGGTATTTC
*
782841 -GATCATTTTACCCTATGGAGGGGTATTTC
1 AG-TCATTTTACCTTAT-G-GGGGTATTTC
* *
782870 -GATCATTTTACCCTATGGGGG-ATTTT
1 AG-TCATTTTACCTTATGGGGGTATTTC
* * ** *
782896 GGTCATTCTACCCAATGAGGGTATTTC
1 AGTCATTTTACCTTATGGGGGTATTTC
* * * ** *
782923 GGTCATTTTACCCTACGAAGGTATTTT
1 AGTCATTTTACCTTATGGGGGTATTTC
*
782950 AGTCATTTTACC-TAT-GGGGTATTTT
1 AGTCATTTTACCTTATGGGGGTATTTC
* ** **
782975 AATGTTTTTACCCAATGGGGGTATTTC
1 AGTCATTTTACCTTATGGGGGTATTTC
* * *
783002 GGTCAATTTACCCTA-GGGGGTATTTC
1 AGTCATTTTACCTTATGGGGGTATTTC
* * *
783028 GGTCATTTTATCTTACGGGGGTATTTC
1 AGTCATTTTACCTTATGGGGGTATTTC
* * *
783055 AATCATTTTACCCTATCGGGGTATTT
1 AGTCATTTTACCTTATGGGGGTATTT
783081 TGATGTCTCA
Statistics
Matches: 288, Mismatches: 50, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
25 17 0.06
26 73 0.25
27 171 0.59
28 1 0.00
29 26 0.09
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (27 bp):
AGTCATTTTACCTTATGGGGGTATTTC
Found at i:782825 original size:80 final size:80
Alignment explanation
Indices: 782707--783080 Score: 400
Period size: 80 Copynumber: 4.7 Consensus size: 80
782697 GGGGTATAAT
* * *
782707 AGTCATTTTACCTTATGGGGGTATTTCGGTCATTCTACCTAACGGGGGTATTTCAGTCATTTTAC
1 AGTCATTTTACC-TATGGGGGTATTTCAGTCATTCTACCCAACGGGGGTATTTCGGTCATTTTAC
782772 CCTATGGGGGTATTTC
65 CCTATGGGGGTATTTC
* *
782788 AGTCATTTTACCTATGGGGGTATTTCAGTCATTCTA-CCATACAGGGGTATTTCGATCATTTTAC
1 AGTCATTTTACCTATGGGGGTATTTCAGTCATTCTACCCA-ACGGGGGTATTTCGGTCATTTTAC
782852 CCTATGGAGGGGTATTTC
65 CCTAT-G-GGGGTATTTC
** * *
782870 -GATCATTTTACCCTATGGGGG-ATTTTGGTCATTCTACCCAATGAGGGTATTTCGGTCATTTTA
1 AG-TCATTTTA-CCTATGGGGGTATTTCAGTCATTCTACCCAACGGGGGTATTTCGGTCATTTTA
* ** *
782933 CCCTACGAAGGTATTTT
64 CCCTATGGGGGTATTTC
* * ** * * *
782950 AGTCATTTTACCTAT-GGGGTATTTTAATGTTTTTACCCAATGGGGGTATTTCGGTCAATTTACC
1 AGTCATTTTACCTATGGGGGTATTTCAGTCATTCTACCCAACGGGGGTATTTCGGTCATTTTACC
783014 CTA-GGGGGTATTTC
66 CTATGGGGGTATTTC
* * * * * *
783028 GGTCATTTTATCTTACGGGGGTATTTCAATCATTTTACCCTATC-GGGGTATTT
1 AGTCATTTTA-CCTATGGGGGTATTTCAGTCATTCTACCC-AACGGGGGTATTT
783081 TGATGTCTCA
Statistics
Matches: 249, Mismatches: 33, Indels: 23
0.82 0.11 0.08
Matches are distributed among these distances:
78 21 0.08
79 50 0.20
80 93 0.37
81 17 0.07
82 55 0.22
83 13 0.05
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (80 bp):
AGTCATTTTACCTATGGGGGTATTTCAGTCATTCTACCCAACGGGGGTATTTCGGTCATTTTACC
CTATGGGGGTATTTC
Found at i:782835 original size:53 final size:54
Alignment explanation
Indices: 782707--783080 Score: 359
Period size: 53 Copynumber: 7.0 Consensus size: 54
782697 GGGGTATAAT
* * * * *
782707 AGTCATTTTACCTTATGGGGGTATTTCGGTCATTCTA-CCTAACGGGGGTATTTC
1 AGTCATTTTACCCTACGGGGGTATTTCAGTCATTTTACCCT-ATGGGGGTATTTC
*
782761 AGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTA-CCTATGGGGGTATTTC
1 AGTCATTTTACCCTACGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTC
* * *
782814 AGTCATTCTACCATACAGGGGTATTTC-GATCATTTTACCCTATGGAGGGGTATTTC
1 AGTCATTTTACCCTACGGGGGTATTTCAG-TCATTTTACCCTAT-G-GGGGTATTTC
* ** * * *
782870 -GATCATTTTACCCTATGGGGG-ATTTTGGTCATTCTACCCAATGAGGGTATTTC
1 AG-TCATTTTACCCTACGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTC
* ** * *
782923 GGTCATTTTACCCTACGAAGGTATTTTAGTCATTTTA-CCTAT-GGGGTATTTT
1 AGTCATTTTACCCTACGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTC
* ** * * * *
782975 AATGTTTTTACCCAATGGGGGTATTTCGGTCAATTTACCCTA-GGGGGTATTTC
1 AGTCATTTTACCCTACGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTC
* * * * *
783028 GGTCATTTTATCTTACGGGGGTATTTCAATCATTTTACCCTATCGGGGTATTT
1 AGTCATTTTACCCTACGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTT
783081 TGATGTCTCA
Statistics
Matches: 261, Mismatches: 48, Indels: 22
0.79 0.15 0.07
Matches are distributed among these distances:
52 35 0.13
53 116 0.44
54 66 0.25
55 18 0.07
56 26 0.10
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (54 bp):
AGTCATTTTACCCTACGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTC
Found at i:785128 original size:27 final size:27
Alignment explanation
Indices: 785088--785500 Score: 444
Period size: 27 Copynumber: 15.4 Consensus size: 27
785078 AGTACAGTGT
**
785088 GGGTATTTTAGTCATTTTACCCTATAG
1 GGGTATTTCGGTCATTTTACCCTATAG
785115 GGGTATTTCGGTCATTTTACCCTATAG
1 GGGTATTTCGGTCATTTTACCCTATAG
*
785142 GGGTATTTCGGTCATTTTAACCTAT-G
1 GGGTATTTCGGTCATTTTACCCTATAG
* * *
785168 GCGATATTTCGATCATTTTACCCTATGG
1 G-GGTATTTCGGTCATTTTACCCTATAG
785196 GGGTATTTCGGTCATTTTA-CCT-TACG
1 GGGTATTTCGGTCATTTTACCCTATA-G
* * *
785222 AGGGTAATTCGATCATTTTACCCTATAA
1 -GGGTATTTCGGTCATTTTACCCTATAG
* * * * *
785250 AGGTATTTCAGTTATTTTACCCCATAA
1 GGGTATTTCGGTCATTTTACCCTATAG
*
785277 GGGTATTTTGGTCATTTTACCCTATAG
1 GGGTATTTCGGTCATTTTACCCTATAG
* * * *
785304 GGGTGTTTCGGCCATTTTACCTTATGG
1 GGGTATTTCGGTCATTTTACCCTATAG
* *
785331 GGGTATTTTGGTCATTTTACCTTAT-G
1 GGGTATTTCGGTCATTTTACCCTATAG
*
785357 AGGGTATTTCAGTCATTTTACCCTAT-G
1 -GGGTATTTCGGTCATTTTACCCTATAG
** *
785384 GGTGTATTTCAATCATTTTACCCTATGG
1 GG-GTATTTCGGTCATTTTACCCTATAG
* * *
785412 GGGTATTTCGGTTAATTTACCCTATGG
1 GGGTATTTCGGTCATTTTACCCTATAG
*
785439 GGGTATTTCGGTCATTTTACCCTA-CG
1 GGGTATTTCGGTCATTTTACCCTATAG
* * *
785465 GGGTATTTCGATCATTTTATCTTAT-G
1 GGGTATTTCGGTCATTTTACCCTATAG
785491 GGGTATTTCG
1 GGGTATTTCG
785501 ATGACTCGGT
Statistics
Matches: 330, Mismatches: 46, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.00
26 42 0.13
27 277 0.84
28 8 0.02
29 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTATAG
Found at i:790814 original size:40 final size:40
Alignment explanation
Indices: 790743--790948 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
790733 TAATTATTGT
* * *
790743 CTGAATGCACATACGTGCCCCTAT-TTGTACTTCGGTATCC
1 CTGAATACACATACGTGCCCCTGTATT-TACTTCGGTACCC
* * *
790783 CTGAATACACATATGTGGCCTTGTATTTACTTCGGTACCC
1 CTGAATACACATACGTGCCCCTGTATTTACTTCGGTACCC
* * * *
790823 CTGAATATACATACGTACCCCTATATGTACTTCGGTACCC
1 CTGAATACACATACGTGCCCCTGTATTTACTTCGGTACCC
** *
790863 CTGAATGTACATACGTGCCCCTGT-TTGTACTTCGGTACAC
1 CTGAATACACATACGTGCCCCTGTATT-TACTTCGGTACCC
* * * * *
790903 CTGAATGCACATACATGCCCATGT-TTATACTTTGGTAACC
1 CTGAATACACATACGTGCCCCTGTATT-TACTTCGGTACCC
*
790943 TTGAAT
1 CTGAAT
790949 CAAATAGTAT
Statistics
Matches: 138, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 135 0.98
41 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.33
Consensus pattern (40 bp):
CTGAATACACATACGTGCCCCTGTATTTACTTCGGTACCC
Found at i:790842 original size:20 final size:20
Alignment explanation
Indices: 790817--790916 Score: 80
Period size: 20 Copynumber: 5.0 Consensus size: 20
790807 ATTTACTTCG
*
790817 GTACCCCTGAATATACATAC
1 GTACCCCTGAATGTACATAC
*
790837 GTACCCCT-ATATGTAC-TTC
1 GTACCCCTGA-ATGTACATAC
790856 GGTACCCCTGAATGTACATAC
1 -GTACCCCTGAATGTACATAC
* ** *
790877 GTGCCCCTGTTTGTAC-TTC
1 GTACCCCTGAATGTACATAC
* *
790896 GGTACACCTGAATGCACATAC
1 -GTACCCCTGAATGTACATAC
790917 ATGCCCATGT
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
19 5 0.08
20 51 0.84
21 5 0.08
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (20 bp):
GTACCCCTGAATGTACATAC
Found at i:790934 original size:80 final size:80
Alignment explanation
Indices: 790743--790948 Score: 234
Period size: 80 Copynumber: 2.6 Consensus size: 80
790733 TAATTATTGT
* * * *
790743 CTGAATGCACATACGTGCCCCTATTTGTACTTCGGTATCCCTGAATACACATATGTGGCCTTGTA
1 CTGAATGCACATACGTGCCCCTATTTGTACTTCGGTAACCCTGAATACACATACGTGCCCCTGTA
*
790808 TTTACTTCGGTACCC
66 TTTACTTCGGTACAC
** * * * **
790823 CTGAATATACATACGTACCCCTATATGTACTTCGGTACCCCTGAATGTACATACGTGCCCCTGT-
1 CTGAATGCACATACGTGCCCCTATTTGTACTTCGGTAACCCTGAATACACATACGTGCCCCTGTA
790887 TTGTACTTCGGTACAC
66 TT-TACTTCGGTACAC
* * * * * *
790903 CTGAATGCACATACATGCCCATGTTTATACTTTGGTAACCTTGAAT
1 CTGAATGCACATACGTGCCCCTATTTGTACTTCGGTAACCCTGAAT
790949 CAAATAGTAT
Statistics
Matches: 103, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
79 2 0.02
80 101 0.98
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.33
Consensus pattern (80 bp):
CTGAATGCACATACGTGCCCCTATTTGTACTTCGGTAACCCTGAATACACATACGTGCCCCTGTA
TTTACTTCGGTACAC
Found at i:791748 original size:54 final size:54
Alignment explanation
Indices: 791651--791773 Score: 167
Period size: 54 Copynumber: 2.3 Consensus size: 54
791641 GTCTTTCAAG
* * * * *
791651 TCAGTGAGTTACACGGCCTAGCACAGGGCTTGACACACCGGCGTGTGTGGCAAC
1 TCAGTGAGTTACACGGCCTAGCACAAGCCTAGACACACAGGCGTGTGGGGCAAC
* *
791705 TCAGAGAGTTACACGGCCTAGCACACAGCCTAG-CACGCAGGCGTGTGGGGCAAC
1 TCAGTGAGTTACACGGCCTAGCACA-AGCCTAGACACACAGGCGTGTGGGGCAAC
791759 TCAGTGAGTTACACG
1 TCAGTGAGTTACACG
791774 AGTGGGGACA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 56 0.93
55 4 0.07
ACGTcount: A:0.24, C:0.28, G:0.31, T:0.17
Consensus pattern (54 bp):
TCAGTGAGTTACACGGCCTAGCACAAGCCTAGACACACAGGCGTGTGGGGCAAC
Found at i:798177 original size:18 final size:17
Alignment explanation
Indices: 798154--798189 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
798144 CAAGAGTCTC
*
798154 CCTACAGTTTTCAGTTTT
1 CCTACAGTCTT-AGTTTT
798172 CCTACAGTCTTAGTTTT
1 CCTACAGTCTTAGTTTT
798189 C
1 C
798190 TCTAATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.17, C:0.25, G:0.11, T:0.47
Consensus pattern (17 bp):
CCTACAGTCTTAGTTTT
Found at i:799225 original size:26 final size:26
Alignment explanation
Indices: 799196--799256 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
799186 AGTAACGCTA
*
799196 CCAGTAACAGTAACGTAACAAAGCTG
1 CCAGTAACAGTAACGCAACAAAGCTG
799222 CCAGTAACAGTAACGCAACAAAGCTG
1 CCAGTAACAGTAACGCAACAAAGCTG
799248 CCAGTAACA
1 CCAGTAACA
799257 ATATATGTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.43, C:0.26, G:0.18, T:0.13
Consensus pattern (26 bp):
CCAGTAACAGTAACGCAACAAAGCTG
Found at i:799454 original size:27 final size:26
Alignment explanation
Indices: 799434--799657 Score: 243
Period size: 27 Copynumber: 8.3 Consensus size: 26
799424 GGGTATAACA
*
799434 GTCATTTTACCCTTTGAGGGTATTTC
1 GTCATTTTACCCTTCGAGGGTATTTC
* *
799460 GGTTATTTTACCCTTCAAGGGTATTTC
1 -GTCATTTTACCCTTCGAGGGTATTTC
* * *
799487 GATCATTTTATCCTTCAAAGGTATTTC
1 G-TCATTTTACCCTTCGAGGGTATTTC
*
799514 AGTCATTTTACCCTTCGAGGGCATTTC
1 -GTCATTTTACCCTTCGAGGGTATTTC
*
799541 GTTCATTTTACCCTTCGGGGGTATTTC
1 G-TCATTTTACCCTTCGAGGGTATTTC
*
799568 GATCATTTTACCATTCGA-GGTATTTC
1 G-TCATTTTACCCTTCGAGGGTATTTC
* * ** *
799594 AGCCATTTTACCCTTTGTCGGTAGTTC
1 -GTCATTTTACCCTTCGAGGGTATTTC
799621 GGTCATTTTACCCTTCGAGGGTATTTC
1 -GTCATTTTACCCTTCGAGGGTATTTC
799648 GATCATTTTA
1 G-TCATTTTA
799658 GGCCCATTAC
Statistics
Matches: 165, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
26 23 0.14
27 141 0.85
28 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTTCGAGGGTATTTC
Found at i:799493 original size:54 final size:54
Alignment explanation
Indices: 799435--799657 Score: 270
Period size: 54 Copynumber: 4.1 Consensus size: 54
799425 GGTATAACAG
* * *
799435 TCATTTTACCCTTTGAGGGTATTTCGGTTATTTTACCCTTCAAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGA
* * * * * *
799489 TCATTTTATCCTTCAAAGGTATTTCAGTCATTTTACCCTTCGAGGGCATTTCGT
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGA
* * *
799543 TCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCATTCGA-GGTATTTC-A
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGA
* * ** *
799595 GCCATTTTACCCTTTGTCGGTAGTTCGGTCATTTTACCCTTCGAGGGTATTTCGA
1 -TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGA
799650 TCATTTTA
1 TCATTTTA
799658 GGCCCATTAC
Statistics
Matches: 140, Mismatches: 26, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
53 43 0.31
54 96 0.69
55 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.43
Consensus pattern (54 bp):
TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGA
Found at i:799630 original size:80 final size:81
Alignment explanation
Indices: 799436--799657 Score: 322
Period size: 80 Copynumber: 2.8 Consensus size: 81
799426 GTATAACAGT
* *
799436 CATTTTACCCTTTGAGGGTATTTCGGTTATTTTACCCTTCAAGGGTATTTCGATCATTTTATCCT
1 CATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTATCCT
*
799501 TCAAAGGTATTTCAGT
66 TCAAAGGTATTTCAGC
* * * *
799517 CATTTTACCCTTCGAGGGCATTTCGTTCATTTTACCCTTCGGGGGTATTTCGATCATTTTA-CCA
1 CATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTATCC-
*
799581 TTC-GAGGTATTTCAGC
65 TTCAAAGGTATTTCAGC
** *
799597 CATTTTACCCTTTGTCGGTAGTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTA
1 CATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTA
799658 GGCCCATTAC
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
80 67 0.54
81 58 0.46
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (81 bp):
CATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTATCCT
TCAAAGGTATTTCAGC
Found at i:799871 original size:18 final size:18
Alignment explanation
Indices: 799822--799872 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
799812 TGAGAGAGGG
799822 TGTGATTACACACCTGTT
1 TGTGATTACACACCTGTT
** *
799840 TGTGAAAACGCACCTGTT
1 TGTGATTACACACCTGTT
799858 TGTGATTACACACCT
1 TGTGATTACACACCT
799873 AGTCCTTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (18 bp):
TGTGATTACACACCTGTT
Found at i:806341 original size:16 final size:16
Alignment explanation
Indices: 806320--806352 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
806310 TTCGCTATAT
*
806320 TGGAATAGATGCGTAA
1 TGGAATAGAGGCGTAA
806336 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
806352 T
1 T
806353 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:806598 original size:16 final size:16
Alignment explanation
Indices: 806561--806602 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
806551 TTAATCATAT
*
806561 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
806577 TT-AAATATATTATAA
1 TTAAAATATATTATAA
806592 TTAAAATATAT
1 TTAAAATATAT
806603 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:806609 original size:14 final size:15
Alignment explanation
Indices: 806570--806611 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
806560 TTTAAACATA
*
806570 ATTATTATTAAATAT
1 ATTATAATTAAATAT
806585 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
806599 A-TATAATTTAATA
1 ATTATAATTAAATA
806612 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:809014 original size:33 final size:33
Alignment explanation
Indices: 808972--809039 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
808962 GCGTGTGGAG
* *
808972 AACTATGAGAAATAGAGGGAGCAAATCGGCAGA
1 AACTATGAGAAACAGAGGGAGAAAATCGGCAGA
*
809005 AACTGTGAGAAACAGAGGGAGAAAATCGGCAGA
1 AACTATGAGAAACAGAGGGAGAAAATCGGCAGA
809038 AA
1 AA
809040 AGAAAAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.47, C:0.12, G:0.31, T:0.10
Consensus pattern (33 bp):
AACTATGAGAAACAGAGGGAGAAAATCGGCAGA
Found at i:809049 original size:33 final size:33
Alignment explanation
Indices: 808979--809049 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
808969 GAGAACTATG
* * * **
808979 AGAAATAGAGGGAGCAAATCGGCAGAAACTGTG
1 AGAAACAGAGGGAGAAAATCGGCAGAAACAGAA
809012 AGAAACAGAGGGAGAAAATCGGCAGAAA-AGAAA
1 AGAAACAGAGGGAGAAAATCGGCAGAAACAG-AA
809045 AGAAA
1 AGAAA
809050 AGAAACGGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.52, C:0.10, G:0.31, T:0.07
Consensus pattern (33 bp):
AGAAACAGAGGGAGAAAATCGGCAGAAACAGAA
Found at i:809100 original size:19 final size:19
Alignment explanation
Indices: 809076--809112 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
809066 AATCGGGCGA
809076 AACAGAAGAGGCAAAGGGG
1 AACAGAAGAGGCAAAGGGG
*
809095 AACAGAAGAGGCAGAGGG
1 AACAGAAGAGGCAAAGGG
809113 TAAAACAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.43, T:0.00
Consensus pattern (19 bp):
AACAGAAGAGGCAAAGGGG
Found at i:817483 original size:136 final size:135
Alignment explanation
Indices: 817234--817605 Score: 462
Period size: 136 Copynumber: 2.7 Consensus size: 135
817224 GCCTACACAG
* * * * *
817234 ACAAGCTGTTGGTCGGAACGTAGTTACACGGTGCTACTTCACAAGTTGTCTAGTATCCACAACAA
1 ACAAGCT-ATGGTCGGAACGTAGCTACACGGTGCTACTCCACAAGCTGTCTAGTATCCGCAACAA
** * * *
817299 ATGCTGAAACTCAGCTA-TCGGTAGGACATTCAAGACCAGCACTCGAAATATTGTAACTTGGGTC
65 ATGCCAAAACTCAGCCACT-GGTAGGACATTCAAGACCAGCACTCGAAATATGGTAACCTGGGTC
*
817363 TGCTCAC
129 TACTCAC
* * *
817370 ACAAGCTATGGGTTGGAACGTAGCTACACAGTGCCACTCCACAAGCTGTCTAGTATCCGCAACAA
1 ACAAGCTAT-GGTCGGAACGTAGCTACACGGTGCTACTCCACAAGCTGTCTAGTATCCGCAACAA
*
817435 ATGCCAAAACTCAACCACTGGTAGGACATTCAAGACCAGCA-TCGGAAATATGGTAACCTGGGTC
65 ATGCCAAAACTCAGCCACTGGTAGGACATTCAAGACCAGCACTC-GAAATATGGTAACCTGGGTC
817499 TACTCAC
129 TACTCAC
* * * * * *
817506 ACAAGTCGTA-GGTCGGAATGTAGCTACATGGTGCTGCTCCACAAGCTATCAAGTATCCGCAATA
1 ACAAG-C-TATGGTCGGAACGTAGCTACACGGTGCTACTCCACAAGCTGTCTAGTATCCGCAACA
* *
817570 AATGCCAGAACTCAGCCACTGCTAGGACATTCAAGA
64 AATGCCAAAACTCAGCCACTGGTAGGACATTCAAGA
817606 GCAACACCCG
Statistics
Matches: 204, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
135 3 0.01
136 197 0.97
137 2 0.01
138 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (135 bp):
ACAAGCTATGGTCGGAACGTAGCTACACGGTGCTACTCCACAAGCTGTCTAGTATCCGCAACAAA
TGCCAAAACTCAGCCACTGGTAGGACATTCAAGACCAGCACTCGAAATATGGTAACCTGGGTCTA
CTCAC
Found at i:822702 original size:29 final size:29
Alignment explanation
Indices: 822659--822744 Score: 109
Period size: 29 Copynumber: 3.0 Consensus size: 29
822649 TGTGCTAAAC
822659 GATGGTCAAAACCATCCCTTTCCATATTT
1 GATGGTCAAAACCATCCCTTTCCATATTT
* *
822688 GATGGTCAAAGCCATCCCTTTTCATATTT
1 GATGGTCAAAACCATCCCTTTCCATATTT
* ** * *
822717 AATGGTCGTAACTATCCCTTTTCATATT
1 GATGGTCAAAACCATCCCTTTCCATATT
822745 CAATGAGCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (29 bp):
GATGGTCAAAACCATCCCTTTCCATATTT
Found at i:827673 original size:18 final size:19
Alignment explanation
Indices: 827652--827693 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
827642 GAATTTCAAT
827652 ATGTGTATGC-AA-ATGTTG
1 ATGTGTATGCTAATAT-TTG
827670 ATGT-TATGCTAATATTTG
1 ATGTGTATGCTAATATTTG
827688 ATGTGT
1 ATGTGT
827694 TATGAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.24
18 13 0.62
19 3 0.14
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (19 bp):
ATGTGTATGCTAATATTTG
Found at i:831004 original size:72 final size:73
Alignment explanation
Indices: 830886--831030 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 73
830876 AATAATTAAT
830886 TAAAAATATTAATAAATAAATGAAGTGATGGGAGATGAAGCAATGAGTGGAGTGAAAAAAAAAGG
1 TAAAAATATTAATAAATAAATGAAGTGATGGGAGATGAAGCAATGAGTGGAGTGAAAAAAAAAGG
830951 AGCAAAAC
66 AGCAAAAC
830959 TAAAAATA-TAATAAATAAATGAAGTGATGGGAGATGAAGCAATGAGTGGAGTGAAAAAAAAAGG
1 TAAAAATATTAATAAATAAATGAAGTGATGGGAGATGAAGCAATGAGTGGAGTGAAAAAAAAAGG
831023 AGCAAAAC
66 AGCAAAAC
831031 GCTTTACAAA
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 64 0.89
73 8 0.11
ACGTcount: A:0.54, C:0.04, G:0.25, T:0.17
Consensus pattern (73 bp):
TAAAAATATTAATAAATAAATGAAGTGATGGGAGATGAAGCAATGAGTGGAGTGAAAAAAAAAGG
AGCAAAAC
Done.