Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008303.1 Hibiscus syriacus cultivar Beakdansim tig00110989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1196166
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 7
Found at i:868256 original size:24 final size:22
Alignment explanation
Indices: 868209--868255 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
868199 ATAAAAAAAT
*
868209 AATATATATATATATAATCTAA
1 AATATATATATATATAAACTAA
*
868231 AATATATATATATACTAAAGTAA
1 AATATATATATATA-TAAACTAA
868254 AA
1 AA
868256 AAGAAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (22 bp):
AATATATATATATATAAACTAA
Found at i:869577 original size:41 final size:42
Alignment explanation
Indices: 869547--869680 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 42
869537 TCATTTTTCA
*
869547 ACAAACACCGCAA-AAGAGTAGTACTTTAGTGGCGTTTTTAT
1 ACAAACACCGCAACAAGAATAGTACTTTAGTGGCGTTTTTAT
* *
869588 ACAAACATCGTAACAA-AATAGTACTTTAGTGGCGTTTTTAT
1 ACAAACACCGCAACAAGAATAGTACTTTAGTGGCGTTTTTAT
* * * * * * * *
869629 ATAAACACCACAATAGGATTAAT-CTATAGTGACGTTTTTCA-
1 ACAAACACCGCAACAAGAATAGTACTTTAGTGGCGTTTTT-AT
869670 ACAAACACCGC
1 ACAAACACCGC
869681 TAAACACGAG
Statistics
Matches: 75, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
41 68 0.91
42 7 0.09
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (42 bp):
ACAAACACCGCAACAAGAATAGTACTTTAGTGGCGTTTTTAT
Found at i:869581 original size:82 final size:83
Alignment explanation
Indices: 869396--869594 Score: 226
Period size: 83 Copynumber: 2.4 Consensus size: 83
869386 ATGTCGGGGC
* * * * * *
869396 AGAGTTGTACTTTAGCGGCGTTTATATAAAAACGCCGCAATTAGGTTCATTTATAGTGGCGTTTA
1 AGAGTAGTACTTTAGCGGCGTTTTTATACAAACACCGCAATTAGGTTCATCTATAGTGGCATTTA
*
869461 TTCAACAAACGCCTTGAAA
66 TTCAACAAACACC-TGAAA
* * * * *
869480 A-AATAGTACTTTAGGGGCGTTTTTATACAAATACCGTAA-TAGGGTTCATCTATAGTGTCATTT
1 AGAGTAGTACTTTAGCGGCGTTTTTATACAAACACCGCAATTA-GGTTCATCTATAGTGGCATTT
869543 -TTCAACAAACACC-GCAAA
65 ATTCAACAAACACCTG-AAA
*
869561 AGAGTAGTACTTTAGTGGCGTTTTTATACAAACA
1 AGAGTAGTACTTTAGCGGCGTTTTTATACAAACA
869595 TCGTAACAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
80 1 0.01
81 4 0.04
82 43 0.44
83 48 0.49
84 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (83 bp):
AGAGTAGTACTTTAGCGGCGTTTTTATACAAACACCGCAATTAGGTTCATCTATAGTGGCATTTA
TTCAACAAACACCTGAAA
Found at i:869600 original size:82 final size:83
Alignment explanation
Indices: 869396--869600 Score: 229
Period size: 82 Copynumber: 2.5 Consensus size: 83
869386 ATGTCGGGGC
* * * * * * *
869396 AGAGTTGTACTTTAGCGGCGTTTATATAAAAACGCCGCAATTAGGTTCATTTATAGTGGCGTTTA
1 AGAGTAGTACTTTAGCGGCGTTTTTATACAAACACCGTAATTAGGTTCATCTATAGTGGCATTTA
*
869461 TTCAACAAACGCCTTGAAA
66 TTCAACAAACACC-TGAAA
* * * *
869480 A-AATAGTACTTTAGGGGCGTTTTTATACAAATACCGTAA-TAGGGTTCATCTATAGTGTCATTT
1 AGAGTAGTACTTTAGCGGCGTTTTTATACAAACACCGTAATTA-GGTTCATCTATAGTGGCATTT
869543 -TTCAACAAACACC-GCAAA
65 ATTCAACAAACACCTG-AAA
* *
869561 AGAGTAGTACTTTAGTGGCGTTTTTATACAAACATCGTAA
1 AGAGTAGTACTTTAGCGGCGTTTTTATACAAACACCGTAA
869601 CAAAATAGTA
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
80 1 0.01
81 4 0.04
82 48 0.47
83 48 0.47
84 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (83 bp):
AGAGTAGTACTTTAGCGGCGTTTTTATACAAACACCGTAATTAGGTTCATCTATAGTGGCATTTA
TTCAACAAACACCTGAAA
Found at i:873440 original size:43 final size:42
Alignment explanation
Indices: 873386--873675 Score: 215
Period size: 42 Copynumber: 6.8 Consensus size: 42
873376 TTTGTATTAC
* * * **
873386 AAACGCCACTAAAAACAACAGCATTAGCGATGTTTGTGGCAAA
1 AAACGTCACTAAAAACAATAGAATTAGCGGCGTTTGTGG-AAA
* * * *
873429 AAACATCACTAAAACCAATAGCATTAGGGGCGTTTGTGGCAAAA
1 AAACGTCACTAAAAACAATAGAATTAGCGGCGTTTGTGG--AAA
* * * * * *
873473 AAATGCCTCTAAAAACAATAGCATTAGCGGCATTTGTGGTAA
1 AAACGTCACTAAAAACAATAGAATTAGCGGCGTTTGTGGAAA
* * * * **
873515 AATCGCCACT-AAAACAAAAAAAATTAGCGATGTTTGTGGAAA
1 AAACGTCACTAAAAAC-AATAGAATTAGCGGCGTTTGTGGAAA
* * *
873557 AAATGCCACTAAAACCAATAGAATTAGCGGCGTTTGT-GATAA
1 AAACGTCACTAAAAACAATAGAATTAGCGGCGTTTGTGGA-AA
* * * * *
873599 AAACGTCACTAAAGACAAGAGAATTAGCGGTGTTTATGGCAA
1 AAACGTCACTAAAAACAATAGAATTAGCGGCGTTTGTGGAAA
* *** *
873641 AAATGTCACTAAAGGTAAGAGAATTAGCGGCGTTT
1 AAACGTCACTAAAAACAATAGAATTAGCGGCGTTT
873676 TTTGCCATAA
Statistics
Matches: 197, Mismatches: 45, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
41 7 0.04
42 118 0.60
43 37 0.19
44 35 0.18
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (42 bp):
AAACGTCACTAAAAACAATAGAATTAGCGGCGTTTGTGGAAA
Found at i:873583 original size:84 final size:84
Alignment explanation
Indices: 873460--873671 Score: 237
Period size: 84 Copynumber: 2.5 Consensus size: 84
873450 CATTAGGGGC
* * * *
873460 GTTTGTGGCAAAAAAATGCCTCTAAAAACAATAGCATTAGCGGCATTTGTGGTAAAATCGCCACT
1 GTTTGTGG--AAAAAATGCCACTAAAAACAATAGAATTAGCGGCATTTGTGATAAAAACGCCACT
873525 AAA-ACAAAAAAAATTAGCGAT
64 AAAGAC-AAAAAAATTAGCGAT
* * *
873546 GTTTGTGGAAAAAATGCCACTAAAACCAATAGAATTAGCGGCGTTTGTGATAAAAACGTCACTAA
1 GTTTGTGGAAAAAATGCCACTAAAAACAATAGAATTAGCGGCATTTGTGATAAAAACGCCACTAA
* * *
873611 AGACAAGAGAATTAGCGGT
66 AGACAAAAAAATTAGCGAT
* * * *** *
873630 GTTTATGGCAAAAATGTCACTAAAGGTAAGAGAATTAGCGGC
1 GTTTGTGGAAAAAATGCCACTAAAAACAATAGAATTAGCGGC
873672 GTTTTTTGCC
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
84 98 0.91
85 2 0.02
86 8 0.07
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (84 bp):
GTTTGTGGAAAAAATGCCACTAAAAACAATAGAATTAGCGGCATTTGTGATAAAAACGCCACTAA
AGACAAAAAAATTAGCGAT
Found at i:877998 original size:2 final size:2
Alignment explanation
Indices: 877991--878029 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
877981 TAATATCTTT
877991 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
878030 TACGATTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:884382 original size:21 final size:21
Alignment explanation
Indices: 884349--884407 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
884339 ACATAAAATG
* *
884349 TCCCGAAAGACCACATATTTA
1 TCCCGAAGGACCACATATATA
** *
884370 TCTTGAATGACCACATATATA
1 TCCCGAAGGACCACATATATA
884391 TCCCGAAGGACCACATA
1 TCCCGAAGGACCACATA
884408 GAAATCTCTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.24
Consensus pattern (21 bp):
TCCCGAAGGACCACATATATA
Found at i:884493 original size:21 final size:21
Alignment explanation
Indices: 884469--884514 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
884459 CAAAGACCCG
* *
884469 CATATATGTTCCAAAGGATTA
1 CATATATGTCCCAAAGGATAA
*
884490 CATATATGTCCCGAAGGATAA
1 CATATATGTCCCAAAGGATAA
884511 CATA
1 CATA
884515 GAACCCTCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.28
Consensus pattern (21 bp):
CATATATGTCCCAAAGGATAA
Found at i:888600 original size:39 final size:38
Alignment explanation
Indices: 888475--888640 Score: 215
Period size: 39 Copynumber: 4.3 Consensus size: 38
888465 AGGACCTACA
* *
888475 GTAAGGACTTACCCTGAGCACAAGTTGAGGAGCCTGCA
1 GTAAGGACTTACCCTGAGCACAAGCTGAGGAGCCTGCG
* *
888513 GTAAGAACTTACCCTGAGCACAAGTTGAGGAGCCTGCG
1 GTAAGGACTTACCCTGAGCACAAGCTGAGGAGCCTGCG
* * * * *
888551 ATAAGAACTTACCTTGACCACAAAGCTGAGGAGCCTACG
1 GTAAGGACTTACCCTGAGCAC-AAGCTGAGGAGCCTGCG
*
888590 GTAAGGACTTACCCTGAGCACAAAACTGAGGAGCCTGCG
1 GTAAGGACTTACCCTGAGCAC-AAGCTGAGGAGCCTGCG
*
888629 ATAAGGACTTAC
1 GTAAGGACTTAC
888641 AAGTCATAGA
Statistics
Matches: 113, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 54 0.48
39 59 0.52
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (38 bp):
GTAAGGACTTACCCTGAGCACAAGCTGAGGAGCCTGCG
Found at i:888607 original size:77 final size:77
Alignment explanation
Indices: 888476--888640 Score: 233
Period size: 77 Copynumber: 2.1 Consensus size: 77
888466 GGACCTACAG
* * * **
888476 TAAGGACTTACCCTGAGCACAAGTTGAGGAGCCTGCAGTAAGAACTTACCCTGAGCAC-AAGTTG
1 TAAGGACTTACCCTGACCACAAGCTGAGGAGCCTACAGTAAGAACTTACCCTGAGCACAAAACTG
888540 AGGAGCCTGCGA
66 AGGAGCCTGCGA
* * * *
888552 TAAGAACTTACCTTGACCACAAAGCTGAGGAGCCTACGGTAAGGACTTACCCTGAGCACAAAACT
1 TAAGGACTTACCCTGACCAC-AAGCTGAGGAGCCTACAGTAAGAACTTACCCTGAGCACAAAACT
888617 GAGGAGCCTGCGA
65 GAGGAGCCTGCGA
888630 TAAGGACTTAC
1 TAAGGACTTAC
888641 AAGTCATAGA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
76 17 0.22
77 34 0.44
78 26 0.34
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.18
Consensus pattern (77 bp):
TAAGGACTTACCCTGACCACAAGCTGAGGAGCCTACAGTAAGAACTTACCCTGAGCACAAAACTG
AGGAGCCTGCGA
Found at i:889609 original size:16 final size:17
Alignment explanation
Indices: 889570--889608 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
889560 CTTCGGGGGT
*
889570 CAAAAAAATTACGGATA
1 CAAAAACATTACGGATA
889587 CAAAAACATTACGGATA
1 CAAAAACATTACGGATA
889604 CAAAA
1 CAAAA
889609 CGGTGAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.15, G:0.10, T:0.15
Consensus pattern (17 bp):
CAAAAACATTACGGATA
Found at i:895674 original size:3 final size:3
Alignment explanation
Indices: 895662--895729 Score: 63
Period size: 3 Copynumber: 23.0 Consensus size: 3
895652 CCATTTGTTT
* *
895662 TTA TTA -TA TTA TTA TTA -TA TTTA ATA TTA TTTA TT- TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA
895706 CTTA -TA TTA TTA TTA TTA TTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA
895730 AATACAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
2 8 0.15
3 38 0.70
4 8 0.15
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:896532 original size:15 final size:14
Alignment explanation
Indices: 896509--896538 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
896499 TTCAATTAGA
896509 AAGAGAATGAGAAG
1 AAGAGAATGAGAAG
896523 AAGAGAAATGAGAAG
1 AAGAG-AATGAGAAG
896538 A
1 A
896539 TTGGCCCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (14 bp):
AAGAGAATGAGAAG
Found at i:897039 original size:2 final size:2
Alignment explanation
Indices: 897032--897122 Score: 98
Period size: 2 Copynumber: 47.0 Consensus size: 2
897022 TATCTTAGTC
897032 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
897074 AT AT GT TT AA AT A- AT A- AT AT TT AT TT AT TT TT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
897113 AT AT AT AT AT
1 AT AT AT AT AT
897123 TTTATTTTAT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
1 3 0.04
2 72 0.96
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (2 bp):
AT
Found at i:897447 original size:2 final size:2
Alignment explanation
Indices: 897440--897472 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
897430 ATAAATATCT
897440 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
897473 TTTCTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:898934 original size:36 final size:36
Alignment explanation
Indices: 898883--898954 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
898873 GAGCTATGCA
* *
898883 CACAAAGATCATGTTATATTAATACCAAAAGTATTC
1 CACAAAGATCATGTTAGATTAATACCAAAAGCATTC
* *
898919 CACAAAGATCCTGTTAGATTGATACCAAAAGCATTC
1 CACAAAGATCATGTTAGATTAATACCAAAAGCATTC
898955 TACGACAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (36 bp):
CACAAAGATCATGTTAGATTAATACCAAAAGCATTC
Found at i:900190 original size:5 final size:5
Alignment explanation
Indices: 900180--900240 Score: 83
Period size: 5 Copynumber: 12.6 Consensus size: 5
900170 GACGGTTGAG
*
900180 TCATA TCATA TCACTA T-ATA -C-TA TGATA TCATA TCATA TCATA TCATA
1 TCATA TCATA TCA-TA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
900228 TCATA TCATA TCA
1 TCATA TCATA TCA
900241 CTATGTACTG
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 43 0.86
6 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (5 bp):
TCATA
Found at i:904554 original size:75 final size:74
Alignment explanation
Indices: 904429--904671 Score: 234
Period size: 75 Copynumber: 3.3 Consensus size: 74
904419 ATCAACAAGA
** * * * *
904429 AGCAAATACTGGGGTATGCTGAAAACCCATTTCAATCA-TAATCAGGAATATT-GACGCATTTTG
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAAT-TGGAATATTGGA-GCATTTTG
*
904492 AATGTTCACGTCA-
64 AACG-TC-CGT-AT
*
904505 A-CAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGGAGTATTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGGAGCATTTTGAA
*
904569 CGTCTGTATT
66 CGTCCGTA-T
*
904579 AGCAAATGTTGGGGCATGCTGAAGGCCCATTTCAATCAGAAATTGGAATA----A-CATTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGGAGCATTTTGAA
* *
904639 CGTTCATAT
66 CGTCCGTAT
* *
904648 CAGTAAATGCTGGGGCATGCTGAA
1 -AGCAAATGTTGGGGCATGCTGAA
904672 GGTCCACATC
Statistics
Matches: 145, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
69 1 0.01
70 34 0.23
71 1 0.01
72 1 0.01
73 2 0.01
74 3 0.02
75 97 0.67
76 6 0.04
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (74 bp):
AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGGAGCATTTTGAA
CGTCCGTAT
Found at i:906515 original size:113 final size:112
Alignment explanation
Indices: 906317--906876 Score: 678
Period size: 113 Copynumber: 4.9 Consensus size: 112
906307 GATTTTAACC
* * *
906317 CATCACTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGG
1 CATCACTCGATGGATCAACATTTCCA-GAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGG
*
906382 AGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
* * * *
906430 CATCACTTGATGGATTAACATTTCCAGAAGTGTTCATAATGAGATGAACTCATCTAAAAGAAGGG
1 CATCACTCGATGGATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCT-GAAGAAGGG
*
906495 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTCGAATT
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
* * * * *
906543 CATCACTTGATGGATTAGCATTTCCAGAAGTGTTCATAATAAGAAGAACTCATCTAAAGAAGGGA
1 CATCACTCGATGGATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGGA
* * *
906608 GAAGAAGTACATAATAAGAAGAACTTGTTCAACCTTTCGCTCGAATT
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
* * ** * *
906655 CATCACTCGATGCATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAA-AAGGA
1 CATCACTCGATGGATCAACATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGG
* * *
906719 AGAAGAAGTTCATAATGAGAAGAACATGTTCAACC-TTTGTTTG-ATT
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
* * *
906765 CTATCACAGAAGGAGATAGATCAGCATCAACATTTCTAGAAGTGTTCATAATGAGAAGAACTCAT
1 C-ATCAC---------TCGAT--GGATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCAT
* *
906830 CTGAAGAA-GGAGAAGAAGTTCATAATAAGATGAACTTGTTCAACCTT
54 CTGAAGAAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
906877 GCCTTAATTC
Statistics
Matches: 388, Mismatches: 43, Indels: 23
0.85 0.09 0.05
Matches are distributed among these distances:
110 4 0.01
111 10 0.03
112 138 0.36
113 154 0.40
120 4 0.01
121 60 0.15
122 18 0.05
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (112 bp):
CATCACTCGATGGATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGGA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
Found at i:906630 original size:225 final size:222
Alignment explanation
Indices: 906317--906876 Score: 685
Period size: 225 Copynumber: 2.5 Consensus size: 222
906307 GATTTTAACC
* * * * * *
906317 CATCACTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGG
1 CATCACTAGATGGATTAGCATTTCCA-GAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGG
* * * * * *
906382 AGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTGATGGATTA
65 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTCGCTCGAATTCATCACTCGATGCATCA
** * *
906447 ACATTTCCAGA-AGTGTTCATAATGAGATGAACTCATCTAAAAGAAGGGAGAAGAAGTTCATAAT
130 ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT-AAA-AAGGAAGAAGAAGTTCATAAT
*
906511 GAGAAGAACTTGTTCAACCTTTTGTTCGAATT
193 GAGAAGAACATGTTCAACC-TTTGTTCG-ATT
* * *
906543 CATCACTTGATGGATTAGCATTTCCAGAAGTGTTCATAATAAGAAGAACTCATCTAAAGAAGGGA
1 CATCACTAGATGGATTAGCATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGGA
*
906608 GAAGAAGTACATAATAAGAAGAACTTGTTCAACCTTTCGCTCGAATTCATCACTCGATGCATCAA
66 GAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTCGCTCGAATTCATCACTCGATGCATCAA
* * *
906673 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAGGAAGAAGAAGTTCATAATGAG
131 CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTAAAAAGGAAGAAGAAGTTCATAATGAG
*
906738 AAGAACATGTTCAACCTTTGTTTGATT
196 AAGAACATGTTCAACCTTTGTTCGATT
* *
906765 CTATCAC-AGAAGGAGATAGATCAGCATCAACATTTCTAGAAGTGTTCATAATGAGAAGAACTCA
1 C-ATCACTAG-ATG-GAT---T-AG------CATTTCCAGAAGTGTTCATAATGAGAAGAACTCA
*
906829 TCTGAAGAA-GGAGAAGAAGTTCATAATAAGATGAACTTGTTCAACCTT
53 TCTGAAGAAGGGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTT
906877 GCCTTAATTC
Statistics
Matches: 289, Mismatches: 31, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
222 5 0.02
223 14 0.05
224 41 0.14
225 104 0.36
226 45 0.16
227 1 0.00
228 2 0.01
233 37 0.13
234 40 0.14
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (222 bp):
CATCACTAGATGGATTAGCATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGGA
GAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTCGCTCGAATTCATCACTCGATGCATCAA
CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTAAAAAGGAAGAAGAAGTTCATAATGAG
AAGAACATGTTCAACCTTTGTTCGATT
Found at i:906749 original size:20 final size:20
Alignment explanation
Indices: 906687--906750 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
906677 TCCAGAGAAA
*
906687 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACAT
* * * * *
906707 ATCTGA-AAAG-GAAGAAGAA
1 GT-TCATAATGAGAAGAACAT
906726 GTTCATAATGAGAAGAACAT
1 GTTCATAATGAGAAGAACAT
906746 GTTCA
1 GTTCA
906751 ACCTTTGTTT
Statistics
Matches: 30, Mismatches: 11, Indels: 6
0.64 0.23 0.13
Matches are distributed among these distances:
18 2 0.07
19 10 0.33
20 16 0.53
21 2 0.07
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.23
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACAT
Found at i:907234 original size:3 final size:3
Alignment explanation
Indices: 907222--907291 Score: 85
Period size: 3 Copynumber: 24.0 Consensus size: 3
907212 CCATTTGTTT
*
907222 TTA TTA -TA TTA TTA TTA -TA TTA TTA ATA TTA TTTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
907265 TTA CTTA -TA TTA TTA TTA TTA TTA TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA
907292 AATAAAAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
2 8 0.14
3 45 0.76
4 6 0.10
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:907278 original size:33 final size:32
Alignment explanation
Indices: 907221--907291 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
907211 TCCATTTGTT
907221 TTTATTATATTATTATTATATTATTAATATTA
1 TTTATTATATTATTATTATATTATTAATATTA
* *
907253 TTTATTTTATTATTACTTATATTATTATTATTA
1 TTTATTATATTATTA-TTATATTATTAATATTA
907286 -TTATTA
1 TTTATTA
907292 AATAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 19 0.54
33 16 0.46
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (32 bp):
TTTATTATATTATTATTATATTATTAATATTA
Found at i:908171 original size:15 final size:16
Alignment explanation
Indices: 908145--908175 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
908135 TCTCAATTAG
908145 AGAGAGAATGAGAAGA
1 AGAGAGAATGAGAAGA
908161 AGAGA-AATGAGAAGA
1 AGAGAGAATGAGAAGA
908176 TTGGCCCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.35, T:0.06
Consensus pattern (16 bp):
AGAGAGAATGAGAAGA
Found at i:908840 original size:2 final size:2
Alignment explanation
Indices: 908833--908857 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
908823 ATAAATATCT
908833 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
908858 TAAAAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:909026 original size:2 final size:2
Alignment explanation
Indices: 909019--909082 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
909009 ATAAATATCT
909019 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
909061 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
909083 ATTAAATTTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:909464 original size:3 final size:3
Alignment explanation
Indices: 909458--909485 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
909448 GATTACAACA
909458 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
909486 ATTAGTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:911254 original size:2 final size:2
Alignment explanation
Indices: 911238--911281 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
911228 GTGTTTAATT
* *
911238 TA TA CA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
911279 TA T
1 TA T
911282 TGAATAGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:912511 original size:23 final size:24
Alignment explanation
Indices: 912463--912511 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
912453 GGTTCTACGC
** *
912463 GGTCCTTTGGGACAAATTCTATGT
1 GGTCCTTCAGGACAAATACTATGT
912487 GGTCCTTCAGGACAAA-ACTATGT
1 GGTCCTTCAGGACAAATACTATGT
912510 GG
1 GG
912512 CACTTAGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (24 bp):
GGTCCTTCAGGACAAATACTATGT
Found at i:918563 original size:24 final size:24
Alignment explanation
Indices: 918503--918567 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 24
918493 CAGTCGAAGG
*
918503 TTCTACGCGGTCCTTCGGGACAAA
1 TTCTACGCGGTCATTCGGGACAAA
* *
918527 -TCTATGTGGTCATTCGGGACAAA
1 TTCTACGCGGTCATTCGGGACAAA
*
918550 TTCTACGCGATCATTCGG
1 TTCTACGCGGTCATTCGG
918568 TCCAATTCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 20 0.59
24 14 0.41
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.29
Consensus pattern (24 bp):
TTCTACGCGGTCATTCGGGACAAA
Found at i:918578 original size:23 final size:23
Alignment explanation
Indices: 918563--918637 Score: 141
Period size: 23 Copynumber: 3.3 Consensus size: 23
918553 TACGCGATCA
918563 TTCGGTCCAATTCTACGTGGCAC
1 TTCGGTCCAATTCTACGTGGCAC
918586 TTCGGTCCAATTCTACGTGGCAC
1 TTCGGTCCAATTCTACGTGGCAC
*
918609 TTCGGTCCAATTCTACGTGGCAT
1 TTCGGTCCAATTCTACGTGGCAC
918632 TTCGGT
1 TTCGGT
918638 GCAAATTATA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.16, C:0.28, G:0.23, T:0.33
Consensus pattern (23 bp):
TTCGGTCCAATTCTACGTGGCAC
Found at i:918869 original size:14 final size:14
Alignment explanation
Indices: 918850--918879 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
918840 CTATATGTTA
918850 ATGATATGAAATGT
1 ATGATATGAAATGT
918864 ATGATATGAAATGT
1 ATGATATGAAATGT
918878 AT
1 AT
918880 AAGCAAGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (14 bp):
ATGATATGAAATGT
Found at i:928042 original size:18 final size:18
Alignment explanation
Indices: 928019--928066 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
928009 TGTCTGACAT
* *
928019 GTTGACCTTGATCGAACC
1 GTTGACTTTGACCGAACC
928037 GTTGACTTTGACCGAACC
1 GTTGACTTTGACCGAACC
*
928055 ATTGACTTTGAC
1 GTTGACTTTGAC
928067 AAGTGTTGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (18 bp):
GTTGACTTTGACCGAACC
Found at i:928330 original size:25 final size:25
Alignment explanation
Indices: 928301--928351 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
928291 ACTCGAGACT
928301 CTCCCGACTGCTCGTCAGCTCGACC
1 CTCCCGACTGCTCGTCAGCTCGACC
928326 CTCCCGACTGCTCGTCAGCTCGACC
1 CTCCCGACTGCTCGTCAGCTCGACC
928351 C
1 C
928352 AGTTTATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.12, C:0.49, G:0.20, T:0.20
Consensus pattern (25 bp):
CTCCCGACTGCTCGTCAGCTCGACC
Found at i:928826 original size:32 final size:32
Alignment explanation
Indices: 928790--928861 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
928780 TGATCATTGT
* * *
928790 GTAGGCTCTTAGGCCCCAAGGTACTCTCTTGG
1 GTAGGCTCTAAGGCCCCAAGGTACTCCCTTAG
* *
928822 GTAGGCTCTAAGGGCCCAGGGTACTCCCTTAG
1 GTAGGCTCTAAGGCCCCAAGGTACTCCCTTAG
*
928854 GTTGGCTC
1 GTAGGCTC
928862 CAACGCCTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.15, C:0.28, G:0.31, T:0.26
Consensus pattern (32 bp):
GTAGGCTCTAAGGCCCCAAGGTACTCCCTTAG
Found at i:931034 original size:21 final size:21
Alignment explanation
Indices: 931009--931123 Score: 90
Period size: 21 Copynumber: 5.4 Consensus size: 21
930999 CACCGAAGTG
931009 CCACATAATTGTCCCAAATGA
1 CCACATAATTGTCCCAAATGA
*
931030 CCACAT-ATGTTTGCACCGAAATG-
1 CCACATAAT-TGT-C-CC-AAATGA
* * *
931053 CCACATATTTGTCCCTAAGGA
1 CCACATAATTGTCCCAAATGA
* * *
931074 CCACATATTTATCCCGAATGA
1 CCACATAATTGTCCCAAATGA
* * *
931095 CCACATATTTGTCTCAATTGA
1 CCACATAATTGTCCCAAATGA
931116 CCACATAA
1 CCACATAA
931124 GACCATCGAC
Statistics
Matches: 75, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
20 5 0.07
21 52 0.69
22 2 0.03
23 10 0.13
24 6 0.08
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (21 bp):
CCACATAATTGTCCCAAATGA
Found at i:931045 original size:44 final size:42
Alignment explanation
Indices: 930995--931122 Score: 152
Period size: 44 Copynumber: 3.0 Consensus size: 42
930985 CAGCTCGTAA
*
930995 TTTGCACCGAAGTGCCACATAATTGTCCCAAATGACCACATAT
1 TTTGCACCGAA-TGCCACATATTTGTCCCAAATGACCACATAT
* *
931038 GTTTGCACCGAAATGCCACATATTTGTCCCTAAGGACCACATAT
1 -TTTGCACCG-AATGCCACATATTTGTCCCAAATGACCACATAT
* *
931082 TTAT-C-CCGAATGACCACATATTTGTCTCAATTGACCACATA
1 TT-TGCACCGAATG-CCACATATTTGTCCCAAATGACCACATA
931123 AGACCATCGA
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
41 4 0.05
42 27 0.36
43 3 0.04
44 38 0.51
45 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.28
Consensus pattern (42 bp):
TTTGCACCGAATGCCACATATTTGTCCCAAATGACCACATAT
Found at i:931057 original size:23 final size:22
Alignment explanation
Indices: 930995--931062 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
930985 CAGCTCGTAA
*
930995 TTTGCACCGAAGTGCCACATA-
1 TTTGCACCGAAATGCCACATAT
*
931016 ATTGTC-CC-AAATGACCACATAT
1 TTTG-CACCGAAATG-CCACATAT
931038 GTTTGCACCGAAATGCCACATAT
1 -TTTGCACCGAAATGCCACATAT
931061 TT
1 TT
931063 GTCCCTAAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
20 4 0.11
21 12 0.32
22 4 0.11
23 13 0.34
24 5 0.13
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (22 bp):
TTTGCACCGAAATGCCACATAT
Found at i:931282 original size:21 final size:21
Alignment explanation
Indices: 931256--931302 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
931246 CATAGAGTCT
*
931256 GTTCACATTCACTAGTTTAAA
1 GTTCACATTCACTAGTTCAAA
*
931277 GTTCACATTCACTTGTTCAAA
1 GTTCACATTCACTAGTTCAAA
931298 GTTCA
1 GTTCA
931303 TATTTCCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (21 bp):
GTTCACATTCACTAGTTCAAA
Found at i:931696 original size:20 final size:20
Alignment explanation
Indices: 931673--931716 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
931663 GAAGTATCGG
931673 TACTACACAAACAGTACTGA
1 TACTACACAAACAGTACTGA
* * *
931693 TACTTCCCAAACAGTATTGA
1 TACTACACAAACAGTACTGA
931713 TACT
1 TACT
931717 TCCTTTCAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (20 bp):
TACTACACAAACAGTACTGA
Found at i:931717 original size:20 final size:20
Alignment explanation
Indices: 931680--931719 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
931670 CGGTACTACA
931680 CAAACAGTACTGATACTTCC
1 CAAACAGTACTGATACTTCC
*
931700 CAAACAGTATTGATACTTCC
1 CAAACAGTACTGATACTTCC
931720 TTTCAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.28
Consensus pattern (20 bp):
CAAACAGTACTGATACTTCC
Found at i:937977 original size:37 final size:37
Alignment explanation
Indices: 937927--938000 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
937917 ATATTTTCTT
937927 ACCTAAAAAGAACTCCAAAATATAATAGAGTAACCTC
1 ACCTAAAAAGAACTCCAAAATATAATAGAGTAACCTC
937964 ACCTAAAAAGAACTCCAAAATATAATAGAGTAACCTC
1 ACCTAAAAAGAACTCCAAAATATAATAGAGTAACCTC
938001 TTGATGCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.51, C:0.22, G:0.08, T:0.19
Consensus pattern (37 bp):
ACCTAAAAAGAACTCCAAAATATAATAGAGTAACCTC
Found at i:938030 original size:26 final size:26
Alignment explanation
Indices: 938001--938051 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
937991 GAGTAACCTC
938001 TTGATGCCAAGTCTGCTAGTCTACTA
1 TTGATGCCAAGTCTGCTAGTCTACTA
938027 TTGATGCCAAGTCTGCTAGTCTACT
1 TTGATGCCAAGTCTGCTAGTCTACT
938052 GTTGGATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
TTGATGCCAAGTCTGCTAGTCTACTA
Found at i:939206 original size:24 final size:24
Alignment explanation
Indices: 939177--939222 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
939167 TGTGGCTCGA
* *
939177 TTGGTCTAGTTTGATTGGATTGAT
1 TTGGTCCAGTTTAATTGGATTGAT
939201 TTGGTCCAGTTTAATTGGATTG
1 TTGGTCCAGTTTAATTGGATTG
939223 GTCTGGTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (24 bp):
TTGGTCCAGTTTAATTGGATTGAT
Found at i:939229 original size:24 final size:24
Alignment explanation
Indices: 939178--939229 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
939168 GTGGCTCGAT
* * *
939178 TGGTCTAGTTTGATTGGATTGATT
1 TGGTCCAGTTTAATTGGATTGATC
*
939202 TGGTCCAGTTTAATTGGATTGGTC
1 TGGTCCAGTTTAATTGGATTGATC
939226 TGGT
1 TGGT
939230 TGGGTCGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.15, C:0.08, G:0.31, T:0.46
Consensus pattern (24 bp):
TGGTCCAGTTTAATTGGATTGATC
Found at i:942703 original size:17 final size:17
Alignment explanation
Indices: 942677--942715 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
942667 GAATTTGAAA
*
942677 TTAAAGTTTTTAAAGTT
1 TTAAAGTTTTTAAAGAT
* *
942694 TTAAATTTTTTTAAGAT
1 TTAAAGTTTTTAAAGAT
942711 TTAAA
1 TTAAA
942716 AAAATAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (17 bp):
TTAAAGTTTTTAAAGAT
Found at i:953434 original size:23 final size:23
Alignment explanation
Indices: 953408--953457 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
953398 AATTAAATCA
*
953408 ATTTAAGAGATTGAGTATTTA-AG
1 ATTTAAGAGATTGA-AATTTAGAG
* *
953431 ATTTTAGGGATTGAAATTTAGAG
1 ATTTAAGAGATTGAAATTTAGAG
953454 ATTT
1 ATTT
953458 GAGAATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (23 bp):
ATTTAAGAGATTGAAATTTAGAG
Found at i:959717 original size:27 final size:27
Alignment explanation
Indices: 959687--959749 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
959677 ATTTTTATTA
*
959687 GTTTTGTTATTATTGGGCGTTTTACCT
1 GTTTTGTTATTATTGGGCGTTTTACCG
*
959714 GTTTTGTTATTATTGGGCGTTTTATCG
1 GTTTTGTTATTATTGGGCGTTTTACCG
959741 GTTTTGTTA
1 GTTTTGTTA
959750 ACAAAATCGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.11, C:0.08, G:0.24, T:0.57
Consensus pattern (27 bp):
GTTTTGTTATTATTGGGCGTTTTACCG
Found at i:969617 original size:22 final size:21
Alignment explanation
Indices: 969569--969617 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
969559 AATAAATTAT
**
969569 TAAATAAATCAATCCATATTT
1 TAAATAAATCAATCCATATAA
*
969590 TAAAATAAATCAATCTATACTAA
1 T-AAATAAATCAATCCATA-TAA
969613 TAAAT
1 TAAAT
969618 TATTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 20 0.87
23 2 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAATAAATCAATCCATATAA
Found at i:969626 original size:32 final size:31
Alignment explanation
Indices: 969588--970017 Score: 238
Period size: 32 Copynumber: 15.4 Consensus size: 31
969578 CAATCCATAT
*
969588 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
969620 TTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
** **
969650 --T--AATAAATCAATTTATA-TTTTAAA-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
969675 --T---A--AATCAATTCATACTAATAAATCA
1 TTTAAAATAAATCAATCCATACTAATAAAT-A
**
969700 TTTAAAATAAATCAATCCATA-TTTTAACATA
1 TTTAAAATAAATCAATCCATACTAATAA-ATA
969731 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACTAATAAA-TA
969764 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
969786 TTTAAAATAAATCAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
969818 TTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
969848 --T--AATAAATCAATCC--A-T-AT-----
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
969866 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
969898 TTTAAAATAAATCAAT---T-C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
969920 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
969952 TTTAAAATAAATCAAT-C---C--AT--GT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
969974 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
970006 TTTAAAATAAAT
1 TTTAAAATAAAT
970018 TATTTTAAAA
Statistics
Matches: 315, Mismatches: 21, Indels: 124
0.68 0.05 0.27
Matches are distributed among these distances:
20 1 0.00
22 72 0.23
23 10 0.03
24 5 0.02
25 8 0.03
26 38 0.12
27 1 0.00
28 11 0.03
29 1 0.00
30 5 0.02
31 14 0.04
32 143 0.45
33 6 0.02
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (31 bp):
TTTAAAATAAATCAATCCATACTAATAAATA
Found at i:969670 original size:80 final size:80
Alignment explanation
Indices: 969571--969720 Score: 257
Period size: 80 Copynumber: 1.9 Consensus size: 80
969561 TAAATTATTA
*
969571 AATAAATCAATCCATATTTTAAAATAAATCAA-TCTATACTAATAAATTATTTAAAATAAATCAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTC-ATACTAATAAATCATTTAAAATAAATCAA
969635 TCCATACAACTACAAT
65 TCCATACAACTACAAT
**
969651 AATAAATCAATTTATATTTTAAAATAAATCAATTCATACTAATAAATCATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATCATTTAAAATAAATCAAT
969716 CCATA
66 CCATA
969721 TTTTAACATA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
80 64 0.97
81 2 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATCATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:969810 original size:198 final size:188
Alignment explanation
Indices: 969558--970017 Score: 762
Period size: 198 Copynumber: 2.4 Consensus size: 188
969548 ACAACTACAA
*
969558 TAATAAATTA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTAT
**
969621 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATTTATATTTTAAAATAAATCAATTC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTC
969686 ATACTAATAAATCATTTAAAATAAATCAATCCATATTTTAACATATTTTAAAATAAATCAATCCA
131 ATACTAATAAATCATTTAAAAT--A--AAT-CA-A--TT--CATATTTTAAAATAAATCAATCCA
969751 TAC
186 TAC
969754 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTAT
969819 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTC
*
969884 ATACTAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
131 ATACTAATAAATCATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
* *
969942 TAATAAATTATTTAAAATAAATCAATCCATGTTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTAT
970007 TTAAAATAAAT
66 TTAAAATAAAT
970018 TATTTTAAAA
Statistics
Matches: 256, Mismatches: 6, Indels: 12
0.93 0.02 0.04
Matches are distributed among these distances:
188 101 0.39
190 2 0.01
192 1 0.00
193 2 0.01
194 3 0.01
196 11 0.04
197 2 0.01
198 134 0.52
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (188 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTC
ATACTAATAAATCATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
Found at i:969811 original size:118 final size:112
Alignment explanation
Indices: 969588--969839 Score: 323
Period size: 118 Copynumber: 2.2 Consensus size: 112
969578 CAATCCATAT
* *
969588 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTAAAATAA
**
969653 TAAATCAATTTATATTTTAAAATAAATCAATTCATACTAATAAATCA
66 TAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATCA
**
969700 TTTAAAATAAATCAATCCATA-TTTTAACA-TATTTTAAAATAAATCAATCCATACTAA-TAAAT
1 TTTAAAATAAATCAATCCATACTAATAA-ATTA-TTTAAAATAAATCAATCCATAC-AACTAAA-
*
969762 TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAA-TCAATACTAATAAATTA
62 -A--T--AATAAATCAATCCATATTTTAAAATAAATCAATTC-ATACTAATAAATCA
969818 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCCATAC
969840 AACTACAATA
Statistics
Matches: 122, Mismatches: 7, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
111 6 0.05
112 46 0.38
113 2 0.02
114 1 0.01
116 1 0.01
117 2 0.02
118 64 0.52
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (112 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTAAAATAA
TAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATCA
Found at i:969815 original size:22 final size:22
Alignment explanation
Indices: 969766--969814 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
969756 ATAAATTATT
* **
969766 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCAATATAA
969788 TAAAATAAATCAATCAATACTAA
1 TAAAATAAATCAATCAATA-TAA
969811 TAAA
1 TAAA
969815 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCAATATAA
Found at i:969834 original size:54 final size:53
Alignment explanation
Indices: 969651--969838 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 53
969641 CAACTACAAT
** *
969651 AATAAATCAATTTATATTTTAAAATAAATCAATTCATACTAATAAATCATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAA-TCATACTAATAAATTATTTAA
969705 AATAAATCAATCCATATTTTAACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAAT-C---------CATATTTTAAAATAAATCAAT-CATACTAATAAATTATTTAA
969769 AATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATC-ATACTAATAAATTATTTAA
969823 AATAAATCAATCCATA
1 AATAAATCAATCCATA
969839 CAACTACAAT
Statistics
Matches: 119, Mismatches: 3, Indels: 24
0.82 0.02 0.16
Matches are distributed among these distances:
53 1 0.01
54 67 0.56
63 2 0.02
64 49 0.41
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (53 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCATACTAATAAATTATTTAA
Found at i:969857 original size:54 final size:54
Alignment explanation
Indices: 969734--969859 Score: 173
Period size: 54 Copynumber: 2.3 Consensus size: 54
969724 TAACATATTT
* * ***
969734 TAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTT
1 TAAAATAAATAAATCAATACTAATAAATTATTTAAAATAAATCAATCCATAAAC
*
969788 TAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATACAAC
1 TAAAATAAATAAATCAATACTAATAAATTATTTAAAATAAATCAATCCATA-AAC
*
969843 TACAAT-AATAAATCAAT
1 TAAAATAAATAAATCAAT
969860 CCATATTTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 60 0.92
55 5 0.08
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (54 bp):
TAAAATAAATAAATCAATACTAATAAATTATTTAAAATAAATCAATCCATAAAC
Found at i:969888 original size:80 final size:83
Alignment explanation
Indices: 969700--969918 Score: 281
Period size: 80 Copynumber: 2.6 Consensus size: 83
969690 TAATAAATCA
* **
969700 TTTAAAATAAATCAATCCATA-TTTTAACA-TATTTTAAAATAAATCAATCCATACTAATAAATT
1 TTTAAAATAAATCAATTCATACTAATAA-ATTA-TTTAAAATAAATCAATCCATACTAATAAA-T
969763 ATTTAAAATAAATCAATCCATAT
63 A-TT-AAATAAATCAATCCATAT
*
969786 TTTAAAATAAATCAA-TCAATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATA
969848 -T-AATAAATCAATCCATAT
64 TTAAATAAATCAATCCATAT
*
969866 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATA
969919 TTTTAAAATA
Statistics
Matches: 123, Mismatches: 5, Indels: 16
0.85 0.03 0.11
Matches are distributed among these distances:
80 66 0.54
81 2 0.02
82 1 0.01
84 1 0.01
85 3 0.02
86 44 0.36
87 6 0.05
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (83 bp):
TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATATT
AAATAAATCAATCCATAT
Found at i:969907 original size:54 final size:54
Alignment explanation
Indices: 969849--970017 Score: 311
Period size: 54 Copynumber: 3.1 Consensus size: 54
969839 CAACTACAAT
*
969849 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
969903 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
969957 AATAAATCAATCCATGTTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
970011 AATAAAT
1 AATAAAT
970018 TATTTTAAAA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 111 1.00
ACGTcount: A:0.52, C:0.11, G:0.01, T:0.36
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:969924 original size:22 final size:22
Alignment explanation
Indices: 969898--969940 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
969888 TAATAAATTA
*
969898 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
969920 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
969941 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:969949 original size:22 final size:22
Alignment explanation
Indices: 969900--969948 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
969890 ATAAATTATT
* **
969900 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
969922 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
969945 TAAA
1 TAAA
969949 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:969967 original size:134 final size:134
Alignment explanation
Indices: 969571--969971 Score: 476
Period size: 134 Copynumber: 2.9 Consensus size: 134
969561 TAAATTATTA
*
969571 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*** * * * *
969636 CCATACAACTACAAT-AATAAATCAAT--T--TATA-T-TTTAAAATAAATCAATTCATACTAA-
66 CCATA-TTTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATAC-AAC
*
969693 TAAATCATTTAA
129 T--A-CA---AT
969705 AATAAATCAATCCATATTTTAACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
1 AATAAATCAAT-C---------CATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
969770 ATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATC
56 ATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATC
969835 CATACAACTACAAT
121 CATACAACTACAAT
*
969849 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
969914 TCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
66 CCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCAT
969972 GTTTTAAAAT
Statistics
Matches: 237, Mismatches: 12, Indels: 36
0.83 0.04 0.13
Matches are distributed among these distances:
134 119 0.50
135 1 0.00
143 6 0.03
144 79 0.33
146 1 0.00
147 2 0.01
148 4 0.02
149 3 0.01
150 22 0.09
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (134 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA
CAAT
Found at i:969980 original size:22 final size:22
Alignment explanation
Indices: 969952--969993 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
969942 TAATAAATTA
969952 TTTAAAATAAATCAATCCATGT
1 TTTAAAATAAATCAATCCATGT
969974 TTTAAAATAAATCAATCCAT
1 TTTAAAATAAATCAATCCAT
969994 ACTAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATGT
Found at i:970003 original size:22 final size:22
Alignment explanation
Indices: 969954--970002 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
969944 ATAAATTATT
* **
969954 TAAAATAAATCAATCCATGTTT
1 TAAAATAAATCAATCCATCTAA
969976 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCAT-CTAA
969999 TAAA
1 TAAA
970003 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATCTAA
Found at i:970026 original size:15 final size:15
Alignment explanation
Indices: 969997--970127 Score: 133
Period size: 15 Copynumber: 8.5 Consensus size: 15
969987 AATCCATACT
969997 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
970011 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
970026 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
970048 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
970063 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
970078 AAT-AATTATTTTAT
1 AATAAATTATTTTAA
*
970092 AAT-AATTATTTTAT
1 AATAAATTATTTTAA
970106 AATAAATTATTTTAA
1 AATAAATTATTTTAA
970121 AATAAAT
1 AATAAAT
970128 AACCTTATTA
Statistics
Matches: 102, Mismatches: 6, Indels: 17
0.82 0.05 0.14
Matches are distributed among these distances:
14 35 0.34
15 50 0.49
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.10
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:970029 original size:29 final size:30
Alignment explanation
Indices: 969997--970127 Score: 133
Period size: 29 Copynumber: 4.2 Consensus size: 30
969987 AATCCATACT
969997 AATAAATTA-TTTAAAATAAATTATTTTAA
1 AATAAATTATTTTAAAATAAATTATTTTAA
* *
970026 AATAAATCAATCCATATTTTATAATAATTTATTTTAA
1 AAT--A--AAT---TATTTTAAAATAAATTATTTTAA
* *
970063 AATAATTTATTTTAAAAT-AATTATTTTAT
1 AATAAATTATTTTAAAATAAATTATTTTAA
*
970092 AAT-AATTATTTTATAATAAATTATTTTAA
1 AATAAATTATTTTAAAATAAATTATTTTAA
970121 AATAAAT
1 AATAAAT
970128 AACCTTATTA
Statistics
Matches: 83, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
28 12 0.14
29 28 0.34
30 13 0.16
31 1 0.01
33 5 0.06
35 1 0.01
36 2 0.02
37 21 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
AATAAATTATTTTAAAATAAATTATTTTAA
Found at i:970142 original size:43 final size:43
Alignment explanation
Indices: 970044--970149 Score: 133
Period size: 43 Copynumber: 2.4 Consensus size: 43
970034 AATCCATATT
* * **
970044 TTATAATAATTTATTTTAAAATAATTTATTTTAAAATAATTATT
1 TTATAATAA-TTATTTTAAAATAAATTATTTTAAAATAATAACC
*
970088 TTATAATAATTATTTTATAATAAATTATTTTAAAATAAATAACC
1 TTATAATAATTATTTTAAAATAAATTATTTTAAAAT-AATAACC
*
970132 TTATTA-AATTATTTTAAA
1 TTATAATAATTATTTTAAA
970150 TTATTTTAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 36 0.67
44 18 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (43 bp):
TTATAATAATTATTTTAAAATAAATTATTTTAAAATAATAACC
Found at i:976674 original size:41 final size:42
Alignment explanation
Indices: 976627--976705 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 42
976617 AAGGTTGGAG
* *
976627 GAGGTTCAGAAGATAATATC-TTTGAGATGTAGGATTGGAAA
1 GAGGTTCAGAAGATAATATCGGTTGAGATGTAAGATTGGAAA
*
976668 GAGGTTCAGAAGCTAATATCGGTTGAGATGTAAGATTG
1 GAGGTTCAGAAGATAATATCGGTTGAGATGTAAGATTG
976706 TAAGGCAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 19 0.56
42 15 0.44
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.29
Consensus pattern (42 bp):
GAGGTTCAGAAGATAATATCGGTTGAGATGTAAGATTGGAAA
Found at i:977297 original size:15 final size:15
Alignment explanation
Indices: 977277--977306 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
977267 TCCATTATTG
977277 GTTTTAAGAATTTGA
1 GTTTTAAGAATTTGA
977292 GTTTTAAGAATTTGA
1 GTTTTAAGAATTTGA
977307 ATCTTACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (15 bp):
GTTTTAAGAATTTGA
Found at i:978448 original size:37 final size:38
Alignment explanation
Indices: 978379--978484 Score: 135
Period size: 37 Copynumber: 2.8 Consensus size: 38
978369 AAGATAAAAG
*
978379 GATAAAGTTATAGTTAATCTAAACTACTAAATCAAATAA
1 GATAGAGTTATAGTT-ATCTAAACTACTAAATCAAATAA
* *
978418 GATAGAGTTATAGTT-TCTAAACTA-TCAAATCAGATAG
1 GATAGAGTTATAGTTATCTAAACTACT-AAATCAAATAA
*
978455 GATGGAGTTATAGTTAATCTAAACTACTAA
1 GATAGAGTTATAGTT-ATCTAAACTACTAA
978485 TTCTAATGAT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
36 1 0.02
37 32 0.54
39 25 0.42
40 1 0.02
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.32
Consensus pattern (38 bp):
GATAGAGTTATAGTTATCTAAACTACTAAATCAAATAA
Found at i:986848 original size:24 final size:24
Alignment explanation
Indices: 986818--986871 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
986808 TTATTTTTTT
*
986818 TATTTTTCACCAGTAGTTTATTTC
1 TATTTTTCACCAGTAGTTTATTTA
* *
986842 TATTTTTCACCAGTTGTTTGTTTA
1 TATTTTTCACCAGTAGTTTATTTA
986866 TATTTT
1 TATTTT
986872 AATCTCTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.13, G:0.09, T:0.59
Consensus pattern (24 bp):
TATTTTTCACCAGTAGTTTATTTA
Found at i:988390 original size:26 final size:27
Alignment explanation
Indices: 988356--988415 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
988346 GTTTGACTTG
* *
988356 ATATAATTTTTTTA-TGAAGTATAAAT
1 ATATTATTTTTTTATTAAAGTATAAAT
988382 ATATTATTTTTTTATTAAAGTATAAAT
1 ATATTATTTTTTTATTAAAGTATAAAT
988409 ATATTAT
1 ATATTAT
988416 ATTCTAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 13 0.42
27 18 0.58
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (27 bp):
ATATTATTTTTTTATTAAAGTATAAAT
Found at i:988680 original size:28 final size:25
Alignment explanation
Indices: 988638--988696 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 25
988628 GAAAATCTTC
*
988638 TATTTATTATGTCAAAATACATTTTTAT
1 TATTTATTATATC-AAAT--ATTTTTAT
988666 T-TTTATTTATATCAAATATTTTTAT
1 TATTTA-TTATATCAAATATTTTTAT
988691 TATTTA
1 TATTTA
988697 AATATGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
25 9 0.32
26 4 0.14
27 8 0.29
28 7 0.25
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (25 bp):
TATTTATTATATCAAATATTTTTAT
Found at i:990786 original size:17 final size:17
Alignment explanation
Indices: 990763--990796 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
990753 ATTCCGAAAA
*
990763 TAAAAATTA-ATTTAAT
1 TAAAAAATATATTTAAT
990779 TAAAAAATATATTTAAT
1 TAAAAAATATATTTAAT
990796 T
1 T
990797 TATATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAAAATATATTTAAT
Found at i:992742 original size:22 final size:18
Alignment explanation
Indices: 992714--992760 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
992704 AATTTTTTCG
*
992714 TTTATTTATTTTGAATAA
1 TTTATTTATTTAGAATAA
992732 TTTATTTATTTAGAATAA
1 TTTATTTATTTAGAATAA
992750 TTTATTTATTT
1 TTTATTTATTT
992761 GAAGGGGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTATTTATTTAGAATAA
Found at i:993247 original size:27 final size:28
Alignment explanation
Indices: 993211--993270 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
993201 ATGTTTATTT
*
993211 ATTTTAATTTTTTATTTATAATATTG-AA
1 ATTTTAATTTTAT-TTTATAATATTGTAA
**
993239 ATTTT-ATTTTATTTTATGTTATTGTAA
1 ATTTTAATTTTATTTTATAATATTGTAA
993266 ATTTT
1 ATTTT
993271 TTATGATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 10 0.36
27 13 0.46
28 5 0.18
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (28 bp):
ATTTTAATTTTATTTTATAATATTGTAA
Found at i:993248 original size:26 final size:27
Alignment explanation
Indices: 993220--993270 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
993210 TATTTTAATT
993220 TTTTA-TTTATAATATTG-AAATTTTA
1 TTTTATTTTATAATATTGTAAATTTTA
**
993245 TTTTATTTTATGTTATTGTAAATTTT
1 TTTTATTTTATAATATTGTAAATTTT
993271 TTATGATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 10 0.45
27 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (27 bp):
TTTTATTTTATAATATTGTAAATTTTA
Found at i:997745 original size:27 final size:25
Alignment explanation
Indices: 997715--997814 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 25
997705 GACTTGAAAG
997715 AAAATAAAATAAAACTAATAAAATAA
1 AAAATAAAATAAAA-TAATAAAATAA
997741 CAAAATATAAA-ATAAA-AATAAAA-ATA
1 -AAAATA-AAATA-AAATAATAAAATA-A
997767 AAAATAAAATAAAATAAAATAAAATAA
1 AAAATAAAATAAAAT--AATAAAATAA
997794 AAAATAAAATAAGAAT-ATAAA
1 AAAATAAAATAA-AATAATAAA
997815 CTACTCAGGC
Statistics
Matches: 64, Mismatches: 0, Indels: 20
0.76 0.00 0.24
Matches are distributed among these distances:
24 6 0.09
25 13 0.20
26 8 0.12
27 27 0.42
28 10 0.16
ACGTcount: A:0.78, C:0.02, G:0.01, T:0.19
Consensus pattern (25 bp):
AAAATAAAATAAAATAATAAAATAA
Found at i:997784 original size:33 final size:34
Alignment explanation
Indices: 997715--997810 Score: 119
Period size: 33 Copynumber: 2.9 Consensus size: 34
997705 GACTTGAAAG
* *
997715 AAAATAAAATAAAACTAATAAAATAACAA-AATAT
1 AAAATAAAATAAAAAT-ATAAAATAACAATAAAAT
997749 AAAATAAAAATAAAAATA-AAAATAA-AATAAAAT
1 AAAAT-AAAATAAAAATATAAAATAACAATAAAAT
*
997782 AAAATAAAATAAAAA-ATAAAATAAGAATA
1 AAAATAAAATAAAAATATAAAATAACAATA
997811 TAAACTACTC
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
31 1 0.02
32 19 0.34
33 20 0.36
34 6 0.11
35 10 0.18
ACGTcount: A:0.78, C:0.02, G:0.01, T:0.19
Consensus pattern (34 bp):
AAAATAAAATAAAAATATAAAATAACAATAAAAT
Found at i:997810 original size:6 final size:5
Alignment explanation
Indices: 997715--997810 Score: 90
Period size: 5 Copynumber: 18.2 Consensus size: 5
997705 GACTTGAAAG
*
997715 AAAAT AAAAT AAAACT --AAT AAAAT AACAA- AATAT AAAAT AAAAAT
1 AAAAT AAAAT AAAA-T AAAAT AAAAT AA-AAT AAAAT AAAAT -AAAAT
997760 AAAAAT AAAAAT AAAAT AAAAT AAAAT AAAAT AAAAAAT AAAAT AAGAAT
1 -AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT --AAAAT AAAAT AA-AAT
997810 A
1 A
997811 TAAACTACTC
Statistics
Matches: 80, Mismatches: 2, Indels: 17
0.81 0.02 0.17
Matches are distributed among these distances:
3 1 0.01
4 3 0.04
5 47 0.59
6 24 0.30
7 5 0.06
ACGTcount: A:0.78, C:0.02, G:0.01, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:999341 original size:3 final size:3
Alignment explanation
Indices: 999333--999363 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
999323 TTTACAAAAA
999333 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
999364 TACATTTTAC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1000892 original size:30 final size:30
Alignment explanation
Indices: 1000858--1001018 Score: 139
Period size: 30 Copynumber: 5.3 Consensus size: 30
1000848 ACTGTTTATC
*
1000858 CCTTTAACTTTCTATTTTTTCTATTTTAGT
1 CCTTTAAATTTCTATTTTTTCTATTTTAGT
* *
1000888 CCTTTAAATGTT-TGTTTTTACTATTTTAGT
1 CCTTTAAAT-TTCTATTTTTTCTATTTTAGT
*
1000918 CCTTTAAATTTCTATTTATGT-TATTTTAGT
1 CCTTTAAATTTCTATTT-TTTCTATTTTAGT
* * * * *
1000948 CCCTTCAATTTCTATTTTTGCTATTTTGGC
1 CCTTTAAATTTCTATTTTTTCTATTTTAGT
* * * *
1000978 CCCTTAAGTTTCT-TTTTATGCTATTTTGGGT
1 CCTTTAAATTTCTATTTT-TTCTATTTT-AGT
1001009 CCTTTTAAAT
1 CC-TTTAAAT
1001019 AGAATGTGAT
Statistics
Matches: 107, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
29 7 0.07
30 88 0.82
31 7 0.07
32 5 0.05
ACGTcount: A:0.18, C:0.16, G:0.09, T:0.58
Consensus pattern (30 bp):
CCTTTAAATTTCTATTTTTTCTATTTTAGT
Found at i:1000966 original size:60 final size:60
Alignment explanation
Indices: 1000852--1001004 Score: 157
Period size: 60 Copynumber: 2.5 Consensus size: 60
1000842 GAAATTACTG
* * * * *
1000852 TTTATCCCTTTAACTTTCTATTT-TTTCTATTTTAGTCCTTTAAATGTTTGTTTTTACTAT
1 TTTAGCCCTTTAAATTTCTATTTATGT-TATTTTAGTCCCTTAAATGTTTATTTTTACTAT
* * *
1000912 TTTAGTCCTTTAAATTTCTATTTATGTTATTTTAGTCCCTTCAAT-TTCTATTTTTGCTAT
1 TTTAGCCCTTTAAATTTCTATTTATGTTATTTTAGTCCCTTAAATGTT-TATTTTTACTAT
* * * * *
1000972 TTTGGCCCCTTAAGTTTCTTTTTATGCTATTTT
1 TTTAGCCCTTTAAATTTCTATTTATGTTATTTT
1001005 GGGTCCTTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
59 2 0.03
60 73 0.95
61 2 0.03
ACGTcount: A:0.18, C:0.16, G:0.07, T:0.59
Consensus pattern (60 bp):
TTTAGCCCTTTAAATTTCTATTTATGTTATTTTAGTCCCTTAAATGTTTATTTTTACTAT
Found at i:1013984 original size:56 final size:56
Alignment explanation
Indices: 1013898--1014296 Score: 593
Period size: 56 Copynumber: 7.1 Consensus size: 56
1013888 TTACCAAATA
* *
1013898 GGCACTAAGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
1 GGCACTATGTGTGCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
* * * *
1013954 GGCACTAAGTGTGCAAAACCACATAATTCATCATGAGTTGATGAATAACCGTACAT
1 GGCACTATGTGTGCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
* * * *
1014010 GGCACTATGTATGCAAAATCACGGAATTCATCATGAGTTGATGAATAACAGTACAT
1 GGCACTATGTGTGCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
* * * * *
1014066 GGCACTATGTGTGCAAAATCACGGAATTCATCATGCGTTAATGAATAACCGTGCAA
1 GGCACTATGTGTGCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
*
1014122 GGCACTATGT-TCGCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACAT
1 GGCACTATGTGT-GCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
* * *
1014178 GACACTATGTGTGCAAAATCACGGAATTCATCATGAGTTGATGAATAACTGTACAG
1 GGCACTATGTGTGCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
* *
1014234 GGCACTATGTGTGTAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTATAG
1 GGCACTATGTGTGCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
1014290 GGCACTA
1 GGCACTA
1014297 AAATTCATCA
Statistics
Matches: 313, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
55 1 0.00
56 311 0.99
57 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (56 bp):
GGCACTATGTGTGCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
Found at i:1014176 original size:168 final size:167
Alignment explanation
Indices: 1013898--1014494 Score: 723
Period size: 168 Copynumber: 3.6 Consensus size: 167
1013888 TTACCAAATA
* * *
1013898 GGCACTAAGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGCACTAAG
1 GGCACTATGTGTGCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGCACTATG
* *
1013963 TGTGCAAAACCACATAATTCATCATGAGTTGATGAATAACCGTACATGGCACTATGTATGCAAAA
66 TGTGC-AAATCACAGAATTCATCATGAGTTGATGAATAACCGTACATGGCACTATGTATGCAAAA
1014028 TCACGGAATTCATCATGAGTTGATGAATAACAGTACAT
130 TCACGGAATTCATCATGAGTTGATGAATAACAGTACAT
* * * * *
1014066 GGCACTATGTGTGCAAAATCACGGAATTCATCATGCGTTAATGAATAACCGTGCAAGGCACTATG
1 GGCACTATGTGTGCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGCACTATG
* *
1014131 T-TCGCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACATGACACTATGTGTGCAAA
66 TGT-GC-AAATCACAGAATTCATCATGAGTTGATGAATAACCGTACATGGCACTATGTATGCAAA
* *
1014195 ATCACGGAATTCATCATGAGTTGATGAATAACTGTACAG
129 ATCACGGAATTCATCATGAGTTGATGAATAACAGTACAT
*
1014234 GGCACTATGTGTGTAAAATCACAGAATTCATCATGAGTTGATGAATAACCGT-------A-TA-G
1 GGCACTATGTGTGCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGCACTATG
* * * * *
1014290 -G-GC-ACT-A-A-AATTCATCATGAGTTGATGAATAACTGTACAGGGAACTATATGA-GCAAAA
66 TGTGCAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACATGGCACTATGT-ATGCAAAA
**
1014348 -CTACAAAATTCATCATGAGTTGATGAATAACCA-TACAT
130 TC-ACGGAATTCATCATGAGTTGATGAATAA-CAGTACAT
* * * *
1014386 GGAACTATGTGAGTAAAA-CTACGGAATTCATCATGAGTTGATGAATAACCGTACAGGGCACTAT
1 GGCACTATGTGTGCAAAATC-ACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGCACTAT
*
1014450 GTGTGCAAATC-CACGAAATTCATCATGAGTTGATGAATAATCGTA
65 GTGTGCAAATCACA-G-AATTCATCATGAGTTGATGAATAACCGTA
1014495 TAAGAACTAT
Statistics
Matches: 371, Mismatches: 35, Indels: 46
0.82 0.08 0.10
Matches are distributed among these distances:
151 2 0.01
152 120 0.32
153 2 0.01
154 1 0.00
155 2 0.01
157 2 0.01
159 2 0.01
160 4 0.01
161 2 0.01
162 1 0.00
163 2 0.01
164 2 0.01
165 1 0.00
167 1 0.00
168 227 0.61
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (167 bp):
GGCACTATGTGTGCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGCACTATG
TGTGCAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACATGGCACTATGTATGCAAAAT
CACGGAATTCATCATGAGTTGATGAATAACAGTACAT
Found at i:1014313 original size:40 final size:40
Alignment explanation
Indices: 1014258--1014336 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
1014248 AAAATCACAG
* *
1014258 AATTCATCATGAGTTGATGAATAACCGTATAGGGCACTAA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGGAACTAA
*
1014298 AATTCATCATGAGTTGATGAATAACTGTACAGGGAACTA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGGAACTA
1014337 TATGAGCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (40 bp):
AATTCATCATGAGTTGATGAATAACCGTACAGGGAACTAA
Found at i:1014366 original size:96 final size:96
Alignment explanation
Indices: 1014202--1014379 Score: 295
Period size: 96 Copynumber: 1.9 Consensus size: 96
1014192 AAAATCACGG
* * * * *
1014202 AATTCATCATGAGTTGATGAATAACTGTACAGGGCACTATGTGTGTAAAATCACAGAATTCATCA
1 AATTCATCATGAGTTGATGAATAACTGTACAGGGAACTATATGAGCAAAATCACAAAATTCATCA
1014267 TGAGTTGATGAATAACCGTATAGGGCACTAA
66 TGAGTTGATGAATAACCGTATAGGGCACTAA
1014298 AATTCATCATGAGTTGATGAATAACTGTACAGGGAACTATATGAGCAAAA-CTACAAAATTCATC
1 AATTCATCATGAGTTGATGAATAACTGTACAGGGAACTATATGAGCAAAATC-ACAAAATTCATC
1014362 ATGAGTTGATGAATAACC
65 ATGAGTTGATGAATAACC
1014380 ATACATGGAA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
95 1 0.01
96 75 0.99
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (96 bp):
AATTCATCATGAGTTGATGAATAACTGTACAGGGAACTATATGAGCAAAATCACAAAATTCATCA
TGAGTTGATGAATAACCGTATAGGGCACTAA
Found at i:1014390 original size:56 final size:56
Alignment explanation
Indices: 1014296--1014494 Score: 281
Period size: 56 Copynumber: 3.6 Consensus size: 56
1014286 ATAGGGCACT
* *
1014296 AAAATTCATCATGAGTTGATGAATAACTGTACAGGGAACTATATGAGCAAAACTAC
1 AAAATTCATCATGAGTTGATGAATAACCGTACAGGGAACTATGTGAGCAAAACTAC
* * *
1014352 AAAATTCATCATGAGTTGATGAATAACCATACATGGAACTATGTGAGTAAAACTAC
1 AAAATTCATCATGAGTTGATGAATAACCGTACAGGGAACTATGTGAGCAAAACTAC
** * * * *
1014408 GGAATTCATCATGAGTTGATGAATAACCGTACAGGGCACTATGTGTGCAAATCCAC
1 AAAATTCATCATGAGTTGATGAATAACCGTACAGGGAACTATGTGAGCAAAACTAC
* *
1014464 GAAATTCATCATGAGTTGATGAATAATCGTA
1 AAAATTCATCATGAGTTGATGAATAACCGTA
1014495 TAAGAACTAT
Statistics
Matches: 127, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 127 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (56 bp):
AAAATTCATCATGAGTTGATGAATAACCGTACAGGGAACTATGTGAGCAAAACTAC
Found at i:1014422 original size:152 final size:152
Alignment explanation
Indices: 1014146--1014448 Score: 441
Period size: 152 Copynumber: 2.0 Consensus size: 152
1014136 AAAATCACAG
* * * **
1014146 AATTCATCATGAGTTGATGAATAACCGTACATGACACTATGTGTGCAAAATCACGGAATTCATCA
1 AATTCATCATGAGTTGATGAATAACCGTACAGGACACTATATGAGCAAAATCACAAAATTCATCA
** * *
1014211 TGAGTTGATGAATAACTGTACAGGGCACTATGTGTGTAAAATCACAGAATTCATCATGAGTTGAT
66 TGAGTTGATGAATAACCATACAGGGAACTATGTGAGTAAAATCACAGAATTCATCATGAGTTGAT
*
1014276 GAATAACCGTATAGGGCACTAA
131 GAATAACCGTACAGGGCACTAA
*
1014298 AATTCATCATGAGTTGATGAATAACTGTACAGGGA-ACTATATGAGCAAAA-CTACAAAATTCAT
1 AATTCATCATGAGTTGATGAATAACCGTACA-GGACACTATATGAGCAAAATC-ACAAAATTCAT
* *
1014361 CATGAGTTGATGAATAACCATACATGGAACTATGTGAGTAAAA-CTACGGAATTCATCATGAGTT
64 CATGAGTTGATGAATAACCATACAGGGAACTATGTGAGTAAAATC-ACAGAATTCATCATGAGTT
1014425 GATGAATAACCGTACAGGGCACTA
128 GATGAATAACCGTACAGGGCACTA
1014449 TGTGTGCAAA
Statistics
Matches: 135, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
151 2 0.01
152 131 0.97
153 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (152 bp):
AATTCATCATGAGTTGATGAATAACCGTACAGGACACTATATGAGCAAAATCACAAAATTCATCA
TGAGTTGATGAATAACCATACAGGGAACTATGTGAGTAAAATCACAGAATTCATCATGAGTTGAT
GAATAACCGTACAGGGCACTAA
Found at i:1014448 original size:208 final size:208
Alignment explanation
Indices: 1014090--1014496 Score: 590
Period size: 208 Copynumber: 2.0 Consensus size: 208
1014080 AAAATCACGG
* * * * ** *
1014090 AATTCATCATGCGTTAATGAATAACCGTGCAAGGCACTATGTTCGCAAAATCACAGAATTCATCA
1 AATTCATCATGAGTTAATGAATAACCGTACAAGGAACTATATGAGCAAAATCACAAAATTCATCA
* *
1014155 TGAGTTGATGAATAACCGTACATGACACTATGTGTGCAAAATCACGGAATTCATCATGAGTTGAT
66 TGAGTTGATGAATAACCATACATGACACTATGTGAGCAAAATCACGGAATTCATCATGAGTTGAT
*
1014220 GAATAACTGTACAGGGCACTATGTGTGTAAAAT-CAC-AGAATTCATCATGAGTTGATGAATAAC
131 GAATAACCGTACAGGGCACTATGTGTG-AAAATCCACGA-AATTCATCATGAGTTGATGAATAAC
1014283 CGTATAGGGCACTAA
194 CGTATAGGGCACTAA
* * *
1014298 AATTCATCATGAGTTGATGAATAACTGTACAGGGAACTATATGAGCAAAA-CTACAAAATTCATC
1 AATTCATCATGAGTTAATGAATAACCGTACAAGGAACTATATGAGCAAAATC-ACAAAATTCATC
*
1014362 ATGAGTTGATGAATAACCATACATGGA-ACTATGTGAGTAAAA-CTACGGAATTCATCATGAGTT
65 ATGAGTTGATGAATAACCATACAT-GACACTATGTGAGCAAAATC-ACGGAATTCATCATGAGTT
*
1014425 GATGAATAACCGTACAGGGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAA
128 GATGAATAACCGTACAGGGCACTATGTGTGAAAATCCACGAAATTCATCATGAGTTGATGAATAA
*
1014490 TCGTATA
193 CCGTATA
1014497 AGAACTATGG
Statistics
Matches: 178, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
207 6 0.03
208 169 0.95
209 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.27
Consensus pattern (208 bp):
AATTCATCATGAGTTAATGAATAACCGTACAAGGAACTATATGAGCAAAATCACAAAATTCATCA
TGAGTTGATGAATAACCATACATGACACTATGTGAGCAAAATCACGGAATTCATCATGAGTTGAT
GAATAACCGTACAGGGCACTATGTGTGAAAATCCACGAAATTCATCATGAGTTGATGAATAACCG
TATAGGGCACTAA
Found at i:1017126 original size:18 final size:18
Alignment explanation
Indices: 1017103--1017137 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1017093 TTCCATCCGG
*
1017103 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
1017121 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
1017138 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:1028155 original size:20 final size:21
Alignment explanation
Indices: 1028130--1028180 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
1028120 AAGTCAAAAC
**
1028130 ATCATT-AAATGATTTGATAT
1 ATCATTGAAATGAAGTGATAT
*
1028150 ATCATTGAATTGAAGTGATAT
1 ATCATTGAAATGAAGTGATAT
*
1028171 ATCACTGAAA
1 ATCATTGAAA
1028181 AGTTTCTGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (21 bp):
ATCATTGAAATGAAGTGATAT
Found at i:1029778 original size:20 final size:20
Alignment explanation
Indices: 1029729--1029780 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1029719 ACTGATCTTC
1029729 AGTATCGATACTCACCCCTG
1 AGTATCGATACTCACCCCTG
* * *
1029749 AATATAGATACTCACCTCTTG
1 AGTATCGATACTCACC-CCTG
1029770 -GTATCGATACT
1 AGTATCGATACT
1029781 AACTGACTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (20 bp):
AGTATCGATACTCACCCCTG
Found at i:1037387 original size:29 final size:31
Alignment explanation
Indices: 1037341--1037404 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
1037331 TTCTTTAAAA
** *
1037341 ATATAATATTATGAATATATTTCATAATTTT
1 ATATAATATTATGAATATATTAAATAATATT
*
1037372 ATATTATATT-TG-ATATATTAAATAATATT
1 ATATAATATTATGAATATATTAAATAATATT
1037401 ATAT
1 ATAT
1037405 GTGAAAAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 18 0.62
30 2 0.07
31 9 0.31
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (31 bp):
ATATAATATTATGAATATATTAAATAATATT
Found at i:1037421 original size:2 final size:2
Alignment explanation
Indices: 1037414--1037450 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1037404 TGTGAAAAGA
1037414 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1037451 AGAGAAAGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1041814 original size:30 final size:30
Alignment explanation
Indices: 1041780--1041842 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
1041770 TTAATACTAG
1041780 TTTAGACAC-TTAA-ATTTATGTTTTTGATAT
1 TTTAGAC-CTTTAACATTT-TGTTTTTGATAT
* *
1041810 TTTAGTCCTTTAACATTTTGTTTTTGCTAT
1 TTTAGACCTTTAACATTTTGTTTTTGATAT
1041840 TTT
1 TTT
1041843 GATCATTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 1 0.03
30 24 0.83
31 4 0.14
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.59
Consensus pattern (30 bp):
TTTAGACCTTTAACATTTTGTTTTTGATAT
Found at i:1045222 original size:99 final size:99
Alignment explanation
Indices: 1045100--1045301 Score: 318
Period size: 99 Copynumber: 2.0 Consensus size: 99
1045090 TTATAATTTT
* * *
1045100 ATATGTATAGAATAAAGCTTGAGCTGTCCTTCTAGAA-CAATTAGTTAAACGCCCC-GACTTTAT
1 ATATCTATACAATAAAGCTTGAGCTGTCCCTCTA-AAGCAATTAGTTAAACGCCCCAG-CTTTAT
* *
1045163 GGATAAGATTCAGCTAGCCTGATAAAGGTGATTATA
64 GGATAAGATTAAACTAGCCTGATAAAGGTGATTATA
*
1045199 ATATCTATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTAGTTAAACGGCCCAGCTTTATGG
1 ATATCTATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTAGTTAAACGCCCCAGCTTTATGG
1045264 ATAAGATTAAACTAGCCTGATAAAGGTGATTATA
66 ATAAGATTAAACTAGCCTGATAAAGGTGATTATA
1045298 ATAT
1 ATAT
1045302 GGAGTTGTCC
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
98 2 0.02
99 92 0.97
100 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (99 bp):
ATATCTATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTAGTTAAACGCCCCAGCTTTATGG
ATAAGATTAAACTAGCCTGATAAAGGTGATTATA
Found at i:1046935 original size:85 final size:85
Alignment explanation
Indices: 1046762--1047161 Score: 479
Period size: 85 Copynumber: 4.7 Consensus size: 85
1046752 CTATTATAGT
* * * * * * *
1046762 ATAGCTCAAGGAGAGAAGGGTTATCTGTCAATAAAATA--TCCAAGTTCGTTTCCATTCATCTCA
1 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAA-ACCTTCGAGTTCGATTCCATTCAGCTCA
*
1046825 AGGAT-ATATCAAATTTATAGC
65 AGG-TCATATCAAATTTACAGC
* *
1046846 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTTCATTCAGCTGAA
1 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAA
*
1046911 GGTCATATCAAATTTACAGA
66 GGTCATATCAAATTTACAGC
1046931 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAA
1 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAA
*
1046996 GGCCATATCAAATTTACAGC
66 GGTCATATCAAATTTACAGC
* * * * * * * *
1047016 ATAACTCAAGGTGAGAAGGGTTATCTGTCAAGAAAAACCTACGAGTTTGATTACATTCAGCTAAA
1 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAA
*
1047081 GGGCATATCAAATTTACAGC
66 GGTCATATCAAATTTACAGC
* ** ** * *
1047101 ATAGCTTAAGTTGAGAAAAGCTATTTGT-AA-AAAAA-CTATCGAGTTTGATTCCATTCAGCTC
1 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCT-TCGAGTTCGATTCCATTCAGCTC
1047162 GATGACATAT
Statistics
Matches: 278, Mismatches: 34, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
82 2 0.01
83 26 0.09
84 36 0.13
85 214 0.77
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (85 bp):
ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAA
GGTCATATCAAATTTACAGC
Found at i:1049371 original size:31 final size:31
Alignment explanation
Indices: 1049336--1049394 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1049326 AACTTAAAAG
1049336 AGTTTT-TCAATACTGAAATTGAAATAATTTT
1 AGTTTTAT-AATACTGAAATTGAAATAATTTT
*
1049367 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTATAATACTGAAATTGAAATAAT
1049395 CCATACAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTATAATACTGAAATTGAAATAATTTT
Found at i:1049446 original size:22 final size:22
Alignment explanation
Indices: 1049418--1049735 Score: 455
Period size: 22 Copynumber: 14.6 Consensus size: 22
1049408 ATAATAATTT
*
1049418 TTTTAAAATAAATCAATCCAAA
1 TTTTAAAATAAATCAATCCATA
1049440 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1049462 TTTTAAAATAAATTAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
1049484 TTTTAAAATAAATCAAATTAATA
1 TTTTAAAATAAATC-AATCCATA
*
1049507 TTTTAAAATAAATCAATCCACA
1 TTTTAAAATAAATCAATCCATA
* **
1049529 TTTAAAAATAAAT-TTTCCATA
1 TTTTAAAATAAATCAATCCATA
1049550 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1049572 TTTTAAAATAAATCAATCCAAA
1 TTTTAAAATAAATCAATCCATA
* ***
1049594 TTTT-AAAT--TTTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
1049613 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1049635 TTTTAAAATAAATCAATCAATA
1 TTTTAAAATAAATCAATCCATA
1049657 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1049679 ATTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1049701 TTTTAAAATAAACCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1049723 TTTTAAAATAAAT
1 TTTTAAAATAAAT
1049736 TTTAAAATAT
Statistics
Matches: 260, Mismatches: 31, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
19 10 0.04
20 4 0.02
21 21 0.08
22 205 0.79
23 20 0.08
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:1049739 original size:12 final size:12
Alignment explanation
Indices: 1049722--1049761 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1049712 ACCAATCCAT
1049722 ATTTTAAAATAA
1 ATTTTAAAATAA
*
1049734 ATTTTAAAATAT
1 ATTTTAAAATAA
1049746 A-TTT-AAAT-A
1 ATTTTAAAATAA
1049755 ATTTTAA
1 ATTTTAA
1049762 TGTTCGTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
9 1 0.04
10 7 0.29
11 4 0.17
12 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:1049745 original size:22 final size:21
Alignment explanation
Indices: 1049720--1049761 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1049710 AAACCAATCC
1049720 ATAT-TTTAAAATAAATTTTAAA
1 ATATATTT-AAAT-AATTTTAAA
1049742 ATATATTTAAATAATTTTAA
1 ATATATTTAAATAATTTTAA
1049762 TGTTCGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 8 0.42
23 3 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATATTTAAATAATTTTAAA
Found at i:1050397 original size:30 final size:30
Alignment explanation
Indices: 1050330--1050386 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1050320 GACCCTTAAA
1050330 TTTTATTTTTGATATTTTAGTCCTTTAACC
1 TTTTATTTTTGATATTTTAGTCCTTTAACC
*
1050360 TTTTATTTTTGCTATTTT-GATCCTTTA
1 TTTTATTTTTGATATTTTAG-TCCTTTA
1050387 CATTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.18, C:0.12, G:0.07, T:0.63
Consensus pattern (30 bp):
TTTTATTTTTGATATTTTAGTCCTTTAACC
Found at i:1050580 original size:24 final size:24
Alignment explanation
Indices: 1050536--1050582 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1050526 TTAAAGACTG
*
1050536 AACATTTTTCTTTATTTTTTTCTT
1 AACATTTTTCTTTATTATTTTCTT
*
1050560 AACATTTTT-TATTGTTATTTTCT
1 AACATTTTTCT-TTATTATTTTCT
1050583 CAATTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.68
Consensus pattern (24 bp):
AACATTTTTCTTTATTATTTTCTT
Found at i:1052802 original size:62 final size:62
Alignment explanation
Indices: 1052705--1052842 Score: 222
Period size: 62 Copynumber: 2.2 Consensus size: 62
1052695 CTGGGCACGG
*
1052705 GTATCGGTACTGATAGAACAATACCGATACTATAGGCTAAAATGGGATGAATCAGCTGCATA
1 GTATCGATACTGATAGAACAATACCGATACTATAGGCTAAAATGGGATGAATCAGCTGCATA
* * *
1052767 GTATCGATACTGATAGAACATTACCGATATTATAGGCTAAAATGGGATGAATCAGCTGCGTA
1 GTATCGATACTGATAGAACAATACCGATACTATAGGCTAAAATGGGATGAATCAGCTGCATA
* *
1052829 GTATTGATATTGAT
1 GTATCGATACTGAT
1052843 TCAATCAATA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 70 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (62 bp):
GTATCGATACTGATAGAACAATACCGATACTATAGGCTAAAATGGGATGAATCAGCTGCATA
Found at i:1053352 original size:58 final size:58
Alignment explanation
Indices: 1053289--1053742 Score: 712
Period size: 58 Copynumber: 7.8 Consensus size: 58
1053279 ATGGTACTAA
*
1053289 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
1053347 GTGTGCAAAAAGTTTAGAAATTCATACTAAGTGTATGAATTTCCATATTGAGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * * *
1053405 GTGTGCAAAAATTTAAGAAATTCATAATAGGTTTATGAATTTTCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
1053463 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
1053521 GTGTACAAAAAGTTAAGAAATTCATACTAGGTGTATGAATTTTCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
1053579 GTGCGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
** * *
1053637 GCATGCAAAAAGTTAAGAGATTCATACTAAGTGTATGAATTTCCGTATTGGGAACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
1053695 -TCATGCAAAAAGTTAAGAGATTCATACTAAGTGTATGAATTTCCGTAT
1 GT-GTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1053743 GGGAAATATA
Statistics
Matches: 363, Mismatches: 32, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
58 363 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (58 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:1059951 original size:62 final size:62
Alignment explanation
Indices: 1059870--1059997 Score: 202
Period size: 62 Copynumber: 2.1 Consensus size: 62
1059860 GTATTGGTAT
* * *
1059870 TGATAGAACAGTACCGATACTATAGGATAAAATAGGATGAATCAGTTGCGTAGTATCGATAC
1 TGATAGAACAATACCGATACTATAGGATAAAATAGGATGAATCAGCTACGTAGTATCGATAC
* * *
1059932 TGATAGAACAATACTGATACTATAGGCTAAAATGGGATGAATCAGCTACGTAGTATCGATAC
1 TGATAGAACAATACCGATACTATAGGATAAAATAGGATGAATCAGCTACGTAGTATCGATAC
1059994 TGAT
1 TGAT
1059998 TCAATTAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (62 bp):
TGATAGAACAATACCGATACTATAGGATAAAATAGGATGAATCAGCTACGTAGTATCGATAC
Found at i:1060103 original size:19 final size:20
Alignment explanation
Indices: 1060079--1060150 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 20
1060069 ATGCAAAAAT
1060079 GGTATCAATACCATAGTA-G
1 GGTATCAATACCATAGTAGG
***
1060098 GGTATCGGCACCATAGTATGG
1 GGTATCAATACCATAGTA-GG
* *
1060119 TAGTATCAATACCATGGTAGG
1 -GGTATCAATACCATAGTAGG
*
1060140 GGTATCGATAC
1 GGTATCAATAC
1060151 TGAAGAGCCA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
19 15 0.38
20 9 0.22
21 3 0.08
22 13 0.32
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (20 bp):
GGTATCAATACCATAGTAGG
Found at i:1060546 original size:58 final size:58
Alignment explanation
Indices: 1060481--1060871 Score: 606
Period size: 58 Copynumber: 6.8 Consensus size: 58
1060471 ATGGCACTAA
1060481 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
1060539 GTATGCAAAAAGTTAAAAAATTCATACTAAGTGTATGAATTTCAGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
1060597 GTGTGCAAAAAGTTAAGAAATTCATA-TAAGGTGTATGAATTTTCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAA-GTGTATGAATTTCCGTATTGGGCACTTT
* *
1060655 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCTTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * * *
1060713 GTGTGCAAAAAATTAAGAAATTCATACTAGGAGTA-CAATTTCTGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
1060770 GTGTGCAAAAATTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGCCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
** * *
1060828 GCATGGAAAAAGTTAAGAGATTCATACTAAGTGTATGAATTTCC
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCC
1060872 TTATGGGAAA
Statistics
Matches: 304, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
57 53 0.17
58 248 0.82
59 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (58 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:1060844 original size:173 final size:174
Alignment explanation
Indices: 1060484--1060875 Score: 617
Period size: 173 Copynumber: 2.3 Consensus size: 174
1060474 GCACTAAGTG
*
1060484 TGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTATGCAAAA
1 TGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCTTATTGGGCACTTTGTATGCAAAA
* * *
1060549 AGTTAAAAAATTCATACTAAGTGTATGAATTTCAGTATTGGGCACTTTGTGTGCAAAAAGTTAAG
66 AATTAAAAAATTCATACTAAGAGTATCAATTTCAGTATTGGGCACTTTGTGTGCAAAAAGTTAAG
* * **
1060614 AAATTCATATAAGGTGTATGAATTTTCGTATTGGGCACTTTGTG
131 AAATTCATATAAGGTGTATGAATTTCCGTATTGGCCACTTTGCA
* *
1060658 TGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCTTATTGGGCACTTTGTGTGCAAAA
1 TGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCTTATTGGGCACTTTGTATGCAAAA
* * * *
1060723 AATTAAGAAATTCATACTAGGAGTA-CAATTTCTGTATTGGGCACTTTGTGTGCAAAAATTTAAG
66 AATTAAAAAATTCATACTAAGAGTATCAATTTCAGTATTGGGCACTTTGTGTGCAAAAAGTTAAG
1060787 AAATTCATACTAA-GTGTATGAATTTCCGTATTGGCCACTTTGCA
131 AAATTCATA-TAAGGTGTATGAATTTCCGTATTGGCCACTTTGCA
* *
1060831 TGGAAAAAGTTAAGAGATTCATACTAAGTGTATGAATTTCCTTAT
1 TGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCTTAT
1060876 GGGAAATATG
Statistics
Matches: 200, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
173 114 0.57
174 86 0.43
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (174 bp):
TGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCTTATTGGGCACTTTGTATGCAAAA
AATTAAAAAATTCATACTAAGAGTATCAATTTCAGTATTGGGCACTTTGTGTGCAAAAAGTTAAG
AAATTCATATAAGGTGTATGAATTTCCGTATTGGCCACTTTGCA
Found at i:1061740 original size:31 final size:32
Alignment explanation
Indices: 1061700--1061760 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
1061690 TATGGTAAAT
*
1061700 TATGTGTTTAGTACTTAAACTATT-AATTTTGG
1 TATGTGTTTAGTACCTAAACT-TTCAATTTTGG
1061732 TATG-GTTTAGTACCTAAACTTTCAATTTT
1 TATGTGTTTAGTACCTAAACTTTCAATTTT
1061761 TTCAAAACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 2 0.07
31 21 0.78
32 4 0.15
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (32 bp):
TATGTGTTTAGTACCTAAACTTTCAATTTTGG
Found at i:1064628 original size:21 final size:20
Alignment explanation
Indices: 1064604--1064644 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1064594 GGCATCTATG
1064604 TTGTAGGCAAGGTATCGATAC
1 TTGTAGG-AAGGTATCGATAC
**
1064625 TTGTAGGGTGGTATCGATAC
1 TTGTAGGAAGGTATCGATAC
1064645 CAAGTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.32
Consensus pattern (20 bp):
TTGTAGGAAGGTATCGATAC
Found at i:1068724 original size:15 final size:15
Alignment explanation
Indices: 1068704--1068743 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
1068694 GTTTCTTCTC
1068704 TTTTTCCTTTTGTCA
1 TTTTTCCTTTTGTCA
1068719 TTTTTCCTTTTGTCA
1 TTTTTCCTTTTGTCA
1068734 TTTTTCCTTT
1 TTTTTCCTTT
1068744 ATCTCTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.70
Consensus pattern (15 bp):
TTTTTCCTTTTGTCA
Found at i:1070428 original size:63 final size:63
Alignment explanation
Indices: 1070351--1070477 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
1070341 ACCTAAGTGA
1070351 ATCCACAAATAAAGGGGAGTTGTATGGAGTTTGTTTATCCAATGAGTGAGTTGTGTTAAGAAC
1 ATCCACAAATAAAGGGGAGTTGTATGGAGTTTGTTTATCCAATGAGTGAGTTGTGTTAAGAAC
1070414 ATCCACAAATAAAGGGGAGTTGTATGGAGTTTGTTTATCCAATGAGTGAGTTGTGTTAAGAAC
1 ATCCACAAATAAAGGGGAGTTGTATGGAGTTTGTTTATCCAATGAGTGAGTTGTGTTAAGAAC
1070477 A
1 A
1070478 AAAGGCCATT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.31
Consensus pattern (63 bp):
ATCCACAAATAAAGGGGAGTTGTATGGAGTTTGTTTATCCAATGAGTGAGTTGTGTTAAGAAC
Found at i:1074029 original size:23 final size:22
Alignment explanation
Indices: 1073993--1074038 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 22
1073983 TCGAAATTTG
1073993 AAAAAAATATAATT-ATTTTTT
1 AAAAAAATATAATTAATTTTTT
1074014 AAAAAAATATTCAATTAATTTTTT
1 AAAAAAATA-T-AATTAATTTTTT
1074038 A
1 A
1074039 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 1 0.05
23 4 0.18
24 8 0.36
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AAAAAAATATAATTAATTTTTT
Found at i:1075390 original size:23 final size:21
Alignment explanation
Indices: 1075363--1075409 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 21
1075353 GTTTTGTACA
1075363 ATATTATTTAAAATTAAATTAAT
1 ATATTATTTAAAA-TAAA-TAAT
*
1075386 ATATTATTTTAAATAAATAAT
1 ATATTATTTAAAATAAATAAT
1075407 ATA
1 ATA
1075410 ATTTTAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.30
22 4 0.17
23 12 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTATTTAAAATAAATAAT
Found at i:1075399 original size:18 final size:19
Alignment explanation
Indices: 1075376--1075416 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1075366 TTATTTAAAA
* *
1075376 TTAAATTAAT-ATATTATT
1 TTAAATAAATAATATAATT
1075394 TTAAATAAATAATATAATT
1 TTAAATAAATAATATAATT
1075413 TTAA
1 TTAA
1075417 CAAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAATAAATAATATAATT
Found at i:1079347 original size:24 final size:24
Alignment explanation
Indices: 1079314--1079366 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
1079304 TCCTTAAATG
1079314 ATAAACAAACACAAACGAACGAAC
1 ATAAACAAACACAAACGAACGAAC
* *
1079338 GTAAACAAACACAAATGAACGAAC
1 ATAAACAAACACAAACGAACGAAC
1079362 ATAAA
1 ATAAA
1079367 ATTAATTGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.62, C:0.21, G:0.09, T:0.08
Consensus pattern (24 bp):
ATAAACAAACACAAACGAACGAAC
Found at i:1080688 original size:24 final size:24
Alignment explanation
Indices: 1080638--1080753 Score: 126
Period size: 24 Copynumber: 4.9 Consensus size: 24
1080628 GAATATAAAT
* *
1080638 GAACGAACATAAAC-AACATATAA
1 GAACGAACATAAACAAACATAGAC
* *
1080661 GAACAAACATAAACAAGCATAGAC
1 GAACGAACATAAACAAACATAGAC
1080685 GAACGAACATAAACAAACATAGAC
1 GAACGAACATAAACAAACATAGAC
* * * *
1080709 GAATGAACATACACAAACATAAAT
1 GAACGAACATAAACAAACATAGAC
* * *
1080733 GAATGAAAATAAACGAACATA
1 GAACGAACATAAACAAACATA
1080754 AATGAAATAA
Statistics
Matches: 79, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
23 13 0.16
24 66 0.84
ACGTcount: A:0.59, C:0.17, G:0.11, T:0.12
Consensus pattern (24 bp):
GAACGAACATAAACAAACATAGAC
Found at i:1086544 original size:21 final size:21
Alignment explanation
Indices: 1086496--1086554 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
1086486 GACCATTACG
1086496 ATATTGATGTGACAGTCCACT
1 ATATTGATGTGACAGTCCACT
* * *
1086517 GTGTTGATGTGAC-GATTCACT
1 ATATTGATGTGACAG-TCCACT
*
1086538 ATATTGATATGACAGTC
1 ATATTGATGTGACAGTC
1086555 AATGATGATT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (21 bp):
ATATTGATGTGACAGTCCACT
Done.