Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 249 of 297
Found at i:85281286 original size:46 final size:46
Alignment explanation
Indices: 85281219--85281309 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
85281209 ACTAAATCCG
85281219 ATAAAGGGAAGGAAAAAGTAGTTGAATCGCCATCAGAATCGTTCGA
1 ATAAAGGGAAGGAAAAAGTAGTTGAATCGCCATCAGAATCGTTCGA
*
85281265 ATAAAGGGAAGGAAAAAGTAGTTGAATCGCCATCGGAATCGTTCG
1 ATAAAGGGAAGGAAAAAGTAGTTGAATCGCCATCAGAATCGTTCG
85281310 GCAACATCCG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (46 bp):
ATAAAGGGAAGGAAAAAGTAGTTGAATCGCCATCAGAATCGTTCGA
Found at i:85281624 original size:39 final size:40
Alignment explanation
Indices: 85281522--85281744 Score: 220
Period size: 40 Copynumber: 5.6 Consensus size: 40
85281512 TCGAATGATG
* * * * *
85281522 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAA
* ** * *
85281562 TCCGGACTAAG-CTCCGAAGGCATTTCTGCGAGATACTAAT
1 TCCGGGCTAAGTC-CCGAAGGCATTGGTGCGAGTTACTAAA
85281602 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
* *
85281641 TCCGAGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
* * * * *
85281681 TCTGGGTTAAGTCCCGAAGGCATTTGTCCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AA
* *
85281722 -CTGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
85281745 TGAACGAGTA
Statistics
Matches: 157, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 33 0.21
40 116 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
Found at i:85289732 original size:40 final size:39
Alignment explanation
Indices: 85289648--85289851 Score: 184
Period size: 40 Copynumber: 5.1 Consensus size: 39
85289638 TTGAATGATG
* *
85289648 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTATA
* **
85289688 TCCGGACTAAGATCCGAAGAAATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTATA
* *
85289727 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTATA
*
85289767 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TCACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGAT-ACTATA
* * **
85289807 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGATA-CTATA
85289847 TCCGG
1 TCCGG
85289852 TTAAATTCCG
Statistics
Matches: 140, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
39 35 0.25
40 94 0.67
41 10 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTATA
Found at i:85289784 original size:79 final size:81
Alignment explanation
Indices: 85289648--85289832 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
85289638 TTGAATGATG
*
85289648 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGAAATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGAAATT
85289712 TGTGCGAGAT-ACTA-A
66 TGTGCGAG-TCACTATA
* * * * **
85289727 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGAAA
85289789 TTTGTGCGAGTCACTATA
64 TTTGTGCGAGTCACTATA
* *
85289807 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
85289833 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.02
79 56 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGAAATT
TGTGCGAGTCACTATA
Found at i:85292701 original size:52 final size:52
Alignment explanation
Indices: 85292639--85292748 Score: 193
Period size: 52 Copynumber: 2.1 Consensus size: 52
85292629 TTTTCTTTTT
* * *
85292639 CTCTTCATCTACCTTCTCCTTTTGTTTTCTCCATAGCCGAATCCTTCTACCA
1 CTCTTCATCTACCTTCTCCTCTTCTTTTCTCCATAGCCGAACCCTTCTACCA
85292691 CTCTTCATCTACCTTCTCCTCTTCTTTTCTCCATAGCCGAACCCTTCTACCA
1 CTCTTCATCTACCTTCTCCTCTTCTTTTCTCCATAGCCGAACCCTTCTACCA
85292743 CTCTTC
1 CTCTTC
85292749 CCTACACCAC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.15, C:0.40, G:0.05, T:0.41
Consensus pattern (52 bp):
CTCTTCATCTACCTTCTCCTCTTCTTTTCTCCATAGCCGAACCCTTCTACCA
Found at i:85295239 original size:43 final size:43
Alignment explanation
Indices: 85295103--85295276 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 43
85295093 CATAGGATTC
* * * *
85295103 TGATATGTGATTTTGTGTAAGACCACGTTTGGGACATTGGCAT
1 TGATATTTGATTTCGTGTAAGACCACGTCTGGGACAGTGGCAT
* * * * *
85295146 CGAT-TTGAGATTTACGTGTAAGATCATGTCTGGGACA-TCGACA-
1 TGATATT-TGATTT-CGTGTAAGACCACGTCTGGGACAGT-GGCAT
*
85295189 TCATATTTGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCAT
1 TGATATTTGATTTCGTGTAAGACCAC-GTCTGGGACAGTGGCAT
* * *
85295232 TGATATTTGATTACATATAAGACCACGTCTGGGAC-GTTGGCAT
1 TGATATTTGATTTCGTGTAAGACCACGTCTGGGACAG-TGGCAT
85295275 TG
1 TG
85295277 TACGAGCTTT
Statistics
Matches: 104, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 25 0.24
43 54 0.52
44 25 0.24
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
TGATATTTGATTTCGTGTAAGACCACGTCTGGGACAGTGGCAT
Found at i:85296326 original size:6 final size:6
Alignment explanation
Indices: 85296258--85296307 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
85296248 AAGAAACATT
* * *
85296258 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
85296306 AT
1 AT
85296308 TAGGTGACAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 1 0.03
6 35 0.95
7 1 0.03
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:85296326 original size:31 final size:31
Alignment explanation
Indices: 85296284--85296363 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
85296274 AAATGAGAAT
* * * *
85296284 CAGAATCAGAATCAGAATTAGAATTAGGTGA
1 CAGAATCAGAATCAAAATCAGAATCAGGTAA
* *
85296315 CAGAATTAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGAATCAGGTAA
*
85296346 CAGAATCAAAATCAAAAT
1 CAGAATCAGAATCAAAAT
85296364 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.21
Consensus pattern (31 bp):
CAGAATCAGAATCAAAATCAGAATCAGGTAA
Found at i:85297506 original size:27 final size:27
Alignment explanation
Indices: 85296799--85297503 Score: 797
Period size: 27 Copynumber: 26.1 Consensus size: 27
85296789 TAACACGCTA
** * *
85296799 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
85296826 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * * *
85296853 ATGGTAAAATAGTAATTTTGTAAATTG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
85296880 AGGGTAAAATAGTAATTTTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
85296907 AGGGTAAAACAGTAATTTTGTCAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
85296934 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * * * *
85296961 ATGGTAAAATAGTAATTTTGTAACTCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
85296988 AGGGTAAAACAGTAATTTTGTCAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
85297015 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
85297042 -GTGGTAAAATAGTAATTTTGTAAATCA
1 AG-GGTAAAACAGTAATTCTGTAAATCG
* **
85297069 AGGATAAAATGGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
85297096 AGGGTAAAATAGTAATTCTGTCAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * * *
85297123 ATGGTAAAACGGTAATTCTATAAATTG
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
85297150 AGGGTAAAACAGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
85297177 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
85297204 AGGGTAAAATAGTAATTCTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
85297231 AGGGTAAAACGGTAATTTTGTCAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
85297258 AGGGTAAAAC-GATAATTCTATAAATCG
1 AGGGTAAAACAG-TAATTCTGTAAATCG
* *
85297285 AGGGTAAAATAGTAATTCTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
85297312 AGGGTAAAACGGTAATTTTGTCAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
85297339 AGGGTAAAAC-GATAATTCTATAAATCG
1 AGGGTAAAACAG-TAATTCTGTAAATCG
* *
85297366 AGGGTAAAATAGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
85297393 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * * *
85297420 AGGGTAAAATAGTAATTTTCTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
85297447 AGGGTAAAACAGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
85297474 AGGGTAAAATAATAATTCTATAAATC-
1 AGGGTAAAACAGTAATTCTGTAAATCG
85297500 AGGG
1 AGGG
85297504 GTACTTTGGT
Statistics
Matches: 577, Mismatches: 95, Indels: 13
0.84 0.14 0.02
Matches are distributed among these distances:
26 7 0.01
27 567 0.98
28 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTCTGTAAATCG
Found at i:85297506 original size:81 final size:81
Alignment explanation
Indices: 85296799--85297482 Score: 888
Period size: 81 Copynumber: 8.4 Consensus size: 81
85296789 TAACACGCTA
* * * * * * *
85296799 AGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAATGGTAAAATA
1 AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATA
* *
85296864 GTAATTTTGTAAATTG
66 GTAATTCTGTAAATCG
* **
85296880 AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTCAATCGAGGGTAAAACG
1 AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATA
*
85296945 GTAATTCTGTAAATCA
66 GTAATTCTGTAAATCG
* * * **
85296961 ATGGTAAAATAGTAATTTTGTAACTCAAGGGTAAAACAGTAATTTTGTCAATCGAGGGTAAAACG
1 AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATA
85297026 GTAATTCTGTAAATCG
66 GTAATTCTGTAAATCG
* ** *
85297042 -GTGGTAAAATAGTAATTTTGTAAATCAAGGATAAAATGGTAATTCTGTAAATCGAGGGTAAAAT
1 AG-GGTAAAATAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAAT
*
85297106 AGTAATTCTGTCAATCG
65 AGTAATTCTGTAAATCG
* ** * * **
85297123 ATGGTAAAACGGTAATTCTATAAATTGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATA
1 AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATA
*
85297188 GTAATTCTATAAATCG
66 GTAATTCTGTAAATCG
* * * *
85297204 AGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTGTCAATCGAGGGTAAAA-C
1 AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATA
*
85297268 GATAATTCTATAAATCG
66 G-TAATTCTGTAAATCG
* * * *
85297285 AGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTGTCAATCGAGGGTAAAA-C
1 AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATA
*
85297349 GATAATTCTATAAATCG
66 G-TAATTCTGTAAATCG
* *
85297366 AGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATA
1 AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATA
* * *
85297431 GTAATTTTCTAAATCA
66 GTAATTCTGTAAATCG
* *
85297447 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAA
1 AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAA
85297483 TAATAATTCT
Statistics
Matches: 541, Mismatches: 58, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
80 1 0.00
81 539 1.00
82 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (81 bp):
AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATA
GTAATTCTGTAAATCG
Found at i:85297516 original size:27 final size:27
Alignment explanation
Indices: 85297486--85297706 Score: 180
Period size: 27 Copynumber: 8.2 Consensus size: 27
85297476 GGTAAAATAA
* * *
85297486 TAATTCTATAAATCAGGGGTACTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
* ***
85297513 TAATTTTACAAGTC-GAGGGTATTTCAA
1 TAATTTTACAAATCAG-GGGTATTTTGG
* ** * *
85297540 TAATTTTATAGGTC-GATGGTATTTTAG
1 TAATTTTACAAATCAG-GGGTATTTTGG
* *
85297567 TAATTTCACAAATTAGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
85297594 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATC-AGGGGTATTTTGG
*
85297621 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
*** * * *
85297648 TAATTTGGTAAACCAAGGGTATTTTAG
1 TAATTTTACAAATCAGGGGTATTTTGG
*
85297675 TAATTTTACAAACCA-GGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
*
85297701 TGATTT
1 TAATTT
85297707 GGAAAACTAA
Statistics
Matches: 159, Mismatches: 31, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
26 16 0.10
27 141 0.89
28 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAATCAGGGGTATTTTGG
Found at i:85297544 original size:81 final size:81
Alignment explanation
Indices: 85296811--85297605 Score: 282
Period size: 81 Copynumber: 9.8 Consensus size: 81
85296801 GGTAAAATGG
* ** * ** ** * **
85296811 TAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAATGGTAAAATAGTAATTTTGTAA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAGGGGTAATTTGGTAATTTTACAA
** * *
85296876 ATTGAGGGTAAAATAG
66 ATCAAGGGTAAAACAA
* * * * * *** * **
85296892 TAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGTCAATC-GAGGGTAAAACGGTAATTCTGTA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAG-GGGTAATTTGGTAATTTTACA
* * *
85296956 AATCAATGGTAAAATAG
65 AATCAAGGGTAAAACAA
* * * * * * *** * **
85296973 TAATTTTGTAACTCAAGGGTAAAACAGTAATTTTGTCAATC-GAGGGTAAAACGGTAATTCTGTA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAG-GGGTAATTTGGTAATTTTACA
* * *
85297037 AATC-GGTGGTAAAATAG
65 AATCAAG-GGTAAAACAA
* * * * ** *
85297054 TAATTTTGTAAATCAAGGATAAAATGGTAATTCTGTAAATC-GAGGGTAAAATAGTAATTCTGT-
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAG-GGGTAATTTGGTAATT-T-TA
* * **
85297117 C-AATCGATGGTAAAACGG
63 CAAATCAAGGGTAAAACAA
* * * * * * ** * * *
85297135 TAATTCTATAAATTGAGGGTAAAACAGTAATTTTGTAAATC-GAGGGTAAAATAGTAATTCTATA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAG-GGGTAATTTGGTAATTTTACA
* * *
85297199 AATCGAGGGTAAAATAG
65 AATCAAGGGTAAAACAA
* * ** * * * *** * * *
85297216 TAATTCTGTAAATCAAGGGTAAAACGGTAATTTTGTCAATC-GAGGGTAAAACGATAATTCTATA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAG-GGGTAATTTGGTAATTTTACA
* * *
85297280 AATCGAGGGTAAAATAG
65 AATCAAGGGTAAAACAA
* * ** * * * *** * * *
85297297 TAATTCTGTAAATCAAGGGTAAAACGGTAATTTTGTCAATC-GAGGGTAAAACGATAATTCTATA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAG-GGGTAATTTGGTAATTTTACA
* * *
85297361 AATCGAGGGTAAAATAG
65 AATCAAGGGTAAAACAA
* * ** *
85297378 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAATAGTAATTTT-CT
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAG-GGGTAATTTGGTAATTTTAC-
*
85297441 AAATCAAGGGTAAAACAG
64 AAATCAAGGGTAAAACAA
* *
85297459 TAATTTTGTAAATCGAGGGTAAAATAATAATTCTATAAATCAGGGGTACTTTGGTAATTTTACAA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAGGGGTAATTTGGTAATTTTACAA
* * ***
85297524 GTCGAGGGTATTTCAA
66 ATCAAGGGTAAAACAA
* ** * *** * * *
85297540 TAATTTTATAGGTCGATGGTATTTTAGTAATT-TCACAAATTAGGGGTATTTTGGTAATTTTACA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCT-ATAAATCAGGGGTAATTTGGTAATTTTACA
85297604 AA
65 AA
85297606 CTAGGGGTAT
Statistics
Matches: 615, Mismatches: 88, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.00
80 1 0.00
81 610 0.99
82 2 0.00
83 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.32
Consensus pattern (81 bp):
TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAGGGGTAATTTGGTAATTTTACAA
ATCAAGGGTAAAACAA
Found at i:85297713 original size:26 final size:27
Alignment explanation
Indices: 85297557--85297706 Score: 194
Period size: 27 Copynumber: 5.6 Consensus size: 27
85297547 ATAGGTCGAT
* * **
85297557 GGTATTTTAGTAATTTCACAAATTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
85297584 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
85297611 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*** *
85297638 GGTATTTTGGTAATTTGGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
85297665 GGTATTTTAGTAATTTTACAAACCA-G
1 GGTATTTTGGTAATTTTACAAACCAGG
*
85297691 GGTATTTTGGTGATTT
1 GGTATTTTGGTAATTT
85297707 GGAAAACTAA
Statistics
Matches: 109, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 15 0.14
27 94 0.86
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAGG
Found at i:85300190 original size:43 final size:43
Alignment explanation
Indices: 85300136--85300290 Score: 222
Period size: 43 Copynumber: 3.6 Consensus size: 43
85300126 ACCGAGATGA
* *
85300136 GATTACATGTAAGACCATGTCTGGGACATTAGCATTG-TATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTA-TGT
*
85300179 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATGT
* *
85300222 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATGT
* * *
85300265 GATAACATGTAATACCATATCTGGGA
1 GATTACATGTAAGACCATGTCTGGGA
85300291 TATGTCATTG
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 100 0.98
44 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATGT
Found at i:85300773 original size:33 final size:33
Alignment explanation
Indices: 85300733--85300824 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 33
85300723 TAAGTTGTCG
*
85300733 AATAAGACCATAGCTGGGCTATGGCAATCGAAT
1 AATAAGACCATAGCTGGACTATGGCAATCGAAT
* *
85300766 AATAAGACCATAGCTAGACTATGGCAATCGACT
1 AATAAGACCATAGCTGGACTATGGCAATCGAAT
* * * **
85300799 AAAAAGACTATAACTGGTTTATGGCA
1 AATAAGACCATAGCTGGACTATGGCA
85300825 CGTGAAAGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (33 bp):
AATAAGACCATAGCTGGACTATGGCAATCGAAT
Found at i:85322850 original size:12 final size:12
Alignment explanation
Indices: 85322833--85322861 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
85322823 ATAGGTTTGG
85322833 CACGGCCTAGCA
1 CACGGCCTAGCA
85322845 CACGGCCTAGCA
1 CACGGCCTAGCA
85322857 CACGG
1 CACGG
85322862 GCGTGTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.41, G:0.28, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:85324028 original size:45 final size:45
Alignment explanation
Indices: 85323969--85324227 Score: 322
Period size: 45 Copynumber: 5.8 Consensus size: 45
85323959 TCATATGATG
* * **
85323969 CCATAGCATCTTTTAGCTATAGTCTTACTCATTTTTATCATGATG
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
* * * * * * * *
85324014 CCACAACATATTTTAGCTATGTTCTTGCTCACTTTTATCATGACG
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
* *
85324059 CCATAGCATCTTTCAGCTATGGTCTTACTAAATTTTATCATGACA
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
* * * * * *
85324104 TCATAGCATATTTCAACTATGGTCTTGCTCACTTTTATCATAACA
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
85324149 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
*
85324194 CCATAGCATCTTTCAGTTAT-GTCTTACTCATTTT
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTT
85324228 AGGTTTAAAA
Statistics
Matches: 183, Mismatches: 31, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
44 14 0.08
45 169 0.92
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.41
Consensus pattern (45 bp):
CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
Found at i:85324555 original size:13 final size:13
Alignment explanation
Indices: 85324537--85324561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85324527 AAATAATCAC
85324537 ACACGGGCGTGTT
1 ACACGGGCGTGTT
85324550 ACACGGGCGTGT
1 ACACGGGCGTGT
85324562 CCCTGCCGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:85349373 original size:29 final size:28
Alignment explanation
Indices: 85349337--85349414 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
85349327 TCATGAGATT
85349337 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
85349367 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
85349394 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
85349415 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:85349632 original size:174 final size:174
Alignment explanation
Indices: 85349367--85350042 Score: 1307
Period size: 174 Copynumber: 3.9 Consensus size: 174
85349357 AAATTGTACA
* *
85349367 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
85349432 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
85349497 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
85349541 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
85349606 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
85349671 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
85349715 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
85349780 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
85349845 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
85349889 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
85349954 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
85350019 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
85350043 ACCTTGAGTT
Statistics
Matches: 496, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 496 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:85352631 original size:46 final size:47
Alignment explanation
Indices: 85352564--85352682 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 47
85352554 TGTGTGTGCT
* *
85352564 AGTGTAAGACATGTTTGGGACATGCATCAGCCACATT-ATGA-AA-TG-C
1 AGTGTAAGACATGTCTGGGACATGCATCAG--ACATTGA-GACAAGAGCC
* *
85352610 AGTGTAAGACATGTCTGGGACATACA--AGGCATTGAGACAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGACATTGAGACAAGAGCC
85352655 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
85352683 GGCTACGAGA
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
42 6 0.10
43 3 0.05
44 3 0.05
45 26 0.42
46 24 0.39
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGACATTGAGACAAGAGCC
Found at i:85352771 original size:50 final size:49
Alignment explanation
Indices: 85352649--85352878 Score: 169
Period size: 50 Copynumber: 4.8 Consensus size: 49
85352639 CATTGAGACA
*
85352649 AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT-
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATATGTG
* * * *
85352696 ---GTCAGTATAAGACTATGTCTAGGACATGGCATCGGCACGGATATGTG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GATATGTG
* * *
85352743 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGAT-T-TCG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATGT-G
* ** * * * * *
85352792 ATAGTAAATGTAAGACCACGTATGGGACATGGCAT---CAAGTTGATG-G
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAT-ATGTG
*
85352838 ATGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
1 A-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
85352879 TTATACCCTA
Statistics
Matches: 139, Mismatches: 28, Indels: 29
0.71 0.14 0.15
Matches are distributed among these distances:
44 10 0.07
45 17 0.12
46 16 0.12
47 29 0.21
48 1 0.01
49 30 0.22
50 34 0.24
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (49 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGTG
Found at i:85354142 original size:85 final size:85
Alignment explanation
Indices: 85353999--85354423 Score: 850
Period size: 85 Copynumber: 5.0 Consensus size: 85
85353989 AGATCGTCGG
85353999 AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
1 AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
85354064 AAGTGGCATTTATAGGGATC
66 AAGTGGCATTTATAGGGATC
85354084 AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
1 AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
85354149 AAGTGGCATTTATAGGGATC
66 AAGTGGCATTTATAGGGATC
85354169 AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
1 AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
85354234 AAGTGGCATTTATAGGGATC
66 AAGTGGCATTTATAGGGATC
85354254 AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
1 AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
85354319 AAGTGGCATTTATAGGGATC
66 AAGTGGCATTTATAGGGATC
85354339 AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
1 AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
85354404 AAGTGGCATTTATAGGGATC
66 AAGTGGCATTTATAGGGATC
85354424 TAGTTGATTG
Statistics
Matches: 340, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 340 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (85 bp):
AGGCAGCATCACACTATCAAGTCGCTATCTCTGGAATAATGAAGCATATATTAGAAATTTCAAGT
AAGTGGCATTTATAGGGATC
Found at i:85355229 original size:383 final size:383
Alignment explanation
Indices: 85354522--85355288 Score: 1534
Period size: 383 Copynumber: 2.0 Consensus size: 383
85354512 TGATTATGGC
85354522 TTGTAAGCCTAGCTATTCATGTTATGTCTAATGTTTATAATGTGATTATGTTTGTTTATCATGCA
1 TTGTAAGCCTAGCTATTCATGTTATGTCTAATGTTTATAATGTGATTATGTTTGTTTATCATGCA
85354587 TGGTTAGTAATATGACATGTGTGTTGGATGTATGCTCTATGACCAACTAAGGTGGTCATAGCCAT
66 TGGTTAGTAATATGACATGTGTGTTGGATGTATGCTCTATGACCAACTAAGGTGGTCATAGCCAT
85354652 ATAGTAATTGCATGTTATAAACACAACATGATAATGATTGAACATGAGTGCTTGATGAATAAGTT
131 ATAGTAATTGCATGTTATAAACACAACATGATAATGATTGAACATGAGTGCTTGATGAATAAGTT
85354717 GGTAATCATAGTATAATGATAAAAGTGGTCATCAAAATGACAAGTCTTATGAATGTGAAATAAGG
196 GGTAATCATAGTATAATGATAAAAGTGGTCATCAAAATGACAAGTCTTATGAATGTGAAATAAGG
85354782 ATTCTAGACTTGGTATTGCATGAGTAGATGCATTACTTGTAAGAGGACATGTTAATGTTAAGGAT
261 ATTCTAGACTTGGTATTGCATGAGTAGATGCATTACTTGTAAGAGGACATGTTAATGTTAAGGAT
85354847 GTGTCTTAATAAAGAGTGATTAATCATTAAAATGATGCCATGATTTGCAATTTTGATA
326 GTGTCTTAATAAAGAGTGATTAATCATTAAAATGATGCCATGATTTGCAATTTTGATA
85354905 TTGTAAGCCTAGCTATTCATGTTATGTCTAATGTTTATAATGTGATTATGTTTGTTTATCATGCA
1 TTGTAAGCCTAGCTATTCATGTTATGTCTAATGTTTATAATGTGATTATGTTTGTTTATCATGCA
85354970 TGGTTAGTAATATGACATGTGTGTTGGATGTATGCTCTATGACCAACTAAGGTGGTCATAGCCAT
66 TGGTTAGTAATATGACATGTGTGTTGGATGTATGCTCTATGACCAACTAAGGTGGTCATAGCCAT
85355035 ATAGTAATTGCATGTTATAAACACAACATGATAATGATTGAACATGAGTGCTTGATGAATAAGTT
131 ATAGTAATTGCATGTTATAAACACAACATGATAATGATTGAACATGAGTGCTTGATGAATAAGTT
85355100 GGTAATCATAGTATAATGATAAAAGTGGTCATCAAAATGACAAGTCTTATGAATGTGAAATAAGG
196 GGTAATCATAGTATAATGATAAAAGTGGTCATCAAAATGACAAGTCTTATGAATGTGAAATAAGG
85355165 ATTCTAGACTTGGTATTGCATGAGTAGATGCATTACTTGTAAGAGGACATGTTAATGTTAAGGAT
261 ATTCTAGACTTGGTATTGCATGAGTAGATGCATTACTTGTAAGAGGACATGTTAATGTTAAGGAT
85355230 GTGTCTTAATAAAGAGTGATTAATCATTAAAATGATGCCATGATTTGCAATTTTGATA
326 GTGTCTTAATAAAGAGTGATTAATCATTAAAATGATGCCATGATTTGCAATTTTGATA
85355288 T
1 T
85355289 GCATAAGGTT
Statistics
Matches: 384, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
383 384 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (383 bp):
TTGTAAGCCTAGCTATTCATGTTATGTCTAATGTTTATAATGTGATTATGTTTGTTTATCATGCA
TGGTTAGTAATATGACATGTGTGTTGGATGTATGCTCTATGACCAACTAAGGTGGTCATAGCCAT
ATAGTAATTGCATGTTATAAACACAACATGATAATGATTGAACATGAGTGCTTGATGAATAAGTT
GGTAATCATAGTATAATGATAAAAGTGGTCATCAAAATGACAAGTCTTATGAATGTGAAATAAGG
ATTCTAGACTTGGTATTGCATGAGTAGATGCATTACTTGTAAGAGGACATGTTAATGTTAAGGAT
GTGTCTTAATAAAGAGTGATTAATCATTAAAATGATGCCATGATTTGCAATTTTGATA
Found at i:85357112 original size:15 final size:16
Alignment explanation
Indices: 85357089--85357130 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
85357079 TGATATTTTC
85357089 TTCTGGATTTCTT-TA
1 TTCTGGATTTCTTATA
85357104 TGT-TGGATTT-TTATA
1 T-TCTGGATTTCTTATA
85357119 TTCTGGATTTCT
1 TTCTGGATTTCT
85357131 CCGTTATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 3 0.13
15 18 0.78
16 2 0.09
ACGTcount: A:0.14, C:0.10, G:0.17, T:0.60
Consensus pattern (16 bp):
TTCTGGATTTCTTATA
Found at i:85359841 original size:50 final size:47
Alignment explanation
Indices: 85359681--85359849 Score: 145
Period size: 47 Copynumber: 3.6 Consensus size: 47
85359671 ATATGTGTGT
* * *
85359681 GCTAGTGTAAGACATGTTTAGGACATGCATCGGCCAC-AT-TATGAAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGG-CACGATATGTGACA
* * * * *
85359727 TGCCAGTGTAAGAAATGTCTGGGACATGCATCGGCTACGAGATGTGTCA
1 -GCTAGTGTAAGACATGTCTAGGACATGCATCGGC-ACGATATGTGACA
85359776 G-TA---TAAGACCATGTCTAGGACATGGCATCGGCACGGATATGTGACA
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCAC-GATATGTGACA
85359822 GCTAGTGTAAGACCATGTCT-GGAACATG
1 GCTAGTGTAAGA-CATGTCTAGG-ACATG
85359850 GAGTCGGCCT
Statistics
Matches: 98, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
44 5 0.05
45 14 0.14
46 19 0.19
47 34 0.35
48 2 0.02
49 7 0.07
50 17 0.17
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCACGATATGTGACA
Found at i:85359850 original size:50 final size:48
Alignment explanation
Indices: 85359731--85359850 Score: 126
Period size: 50 Copynumber: 2.5 Consensus size: 48
85359721 ATGAAATGCC
* *
85359731 AGTGTAAGA-AATGTCTGGGACAT-GCATCGGCTACGAGATGTGTCAGT
1 AGTGTAAGACCATGTCT-GGACATGGCATCGGCTACGAGATGTGACAGT
*
85359778 A---TAAGACCATGTCTAGGACATGGCATCGGC-ACGGATATGTGACAGCT
1 AGTGTAAGACCATGTCT-GGACATGGCATCGGCTAC-GAGATGTGACAG-T
85359825 AGTGTAAGACCATGTCTGGAACATGG
1 AGTGTAAGACCATGTCTGG-ACATGG
85359851 AGTCGGCCTT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
44 5 0.08
45 14 0.23
46 18 0.30
47 3 0.05
49 2 0.03
50 19 0.31
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGACATGGCATCGGCTACGAGATGTGACAGT
Found at i:85359898 original size:49 final size:47
Alignment explanation
Indices: 85359827--85359949 Score: 142
Period size: 47 Copynumber: 2.6 Consensus size: 47
85359817 TGACAGCTAG
* * *
85359827 TGTAAGACCATGTCTGGAACATGG-AGTCGGCCTTGATTTCGAT-AGTCAA
1 TGTAAGACCATGTCTGGGACATGGCA-TC-GACTTGA--TCGATGAGCCAA
* * *
85359876 TGTAAGACCATGTTTGGGACATGGCATCGACTTGATGGATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTGATCGATGAGCCAA
85359923 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
85359950 TGACATTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
46 4 0.06
47 30 0.46
48 6 0.09
49 24 0.37
50 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTTGATCGATGAGCCAA
Found at i:85362478 original size:40 final size:40
Alignment explanation
Indices: 85362414--85362510 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
85362404 ACTCGATATC
* * ** *
85362414 TCACACACTAAGTGTCGTACATAGCCGAAGCTATCTTAAA
1 TCACACACTAAGTGCCATTTATAGCCGAAGCTATCTCAAA
* * * * *
85362454 TCGCACACTAAGTGCCATTTATAGCTGCAGCTATGTCAAG
1 TCACACACTAAGTGCCATTTATAGCCGAAGCTATCTCAAA
85362494 TCACACACTAAGTGCCA
1 TCACACACTAAGTGCCA
85362511 CAAATAGCCG
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (40 bp):
TCACACACTAAGTGCCATTTATAGCCGAAGCTATCTCAAA
Found at i:85372287 original size:47 final size:46
Alignment explanation
Indices: 85372218--85372379 Score: 175
Period size: 47 Copynumber: 3.5 Consensus size: 46
85372208 CCGATGCCAG
* * * * *
85372218 GTCCCATACACGGTCTTACACTGACTTATATCTTAAGTCAAAGCCAT
1 GTCCCAGACATGGTCTTACACTGACTTATATCTCAAGCCGAAG-CAT
* *
85372265 GTCCCAGACATGGTCTTACACTGAC-TATCATCTCATAGCCGACGTAT
1 GTCCCAGACATGGTCTTACACTGACTTAT-ATCTCA-AGCCGAAGCAT
* * * *
85372312 GTCCCAGACAT-GTCTTACACTGGCTTATGTCTCGAGGCCGATGCAT
1 GTCCCAGACATGGTCTTACACTGACTTATATCTC-AAGCCGAAGCAT
85372358 GTCCCAGACATGGTCTTACACT
1 GTCCCAGACATGGTCTTACACT
85372380 AGCTCTCACA
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 38 0.39
47 55 0.56
48 5 0.05
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
GTCCCAGACATGGTCTTACACTGACTTATATCTCAAGCCGAAGCAT
Found at i:85378652 original size:40 final size:40
Alignment explanation
Indices: 85378594--85378881 Score: 431
Period size: 40 Copynumber: 7.2 Consensus size: 40
85378584 TCTTCGGGAT
* * *
85378594 TTAG-CCGGATATAACAACTCGCACAAATGCCCTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGTC
85378633 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGTC
85378673 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGTC
85378713 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGTC
85378753 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGTC
* * * *
85378793 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTC-AGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGA-GTC
* *
85378833 ATAGCCCGGATATAGCAACTCGCACGAATGCCTTCG-GATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAG-TC
*
85378873 TTAGTCCGG
1 TTAGCCCGG
85378882 TCATTTGCAC
Statistics
Matches: 228, Mismatches: 15, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
39 8 0.04
40 218 0.96
41 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGTC
Found at i:85383621 original size:42 final size:42
Alignment explanation
Indices: 85383574--85383664 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
85383564 GACCCTTAGA
* *
85383574 CCCATTTCAATATCACATGTAATGTCAATGAATGTGTGCAAG
1 CCCATTTCAATATCACATATAATGTCAATGAATGTATGCAAG
85383616 CCCATTTCAATATCACATATAATGTCAATGAATGTATGCAAG
1 CCCATTTCAATATCACATATAATGTCAATGAATGTATGCAAG
85383658 CCCATTT
1 CCCATTT
85383665 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (42 bp):
CCCATTTCAATATCACATATAATGTCAATGAATGTATGCAAG
Found at i:85383845 original size:25 final size:25
Alignment explanation
Indices: 85383812--85383881 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
85383802 CTCTTTTAAT
*
85383812 AACTAGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
85383837 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
85383862 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
85383882 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:85385898 original size:19 final size:18
Alignment explanation
Indices: 85385848--85385919 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 18
85385838 CTTTTCAAAA
85385848 TATATCGATACCTATTGTATT
1 TATATCGATACC-ATT-T-TT
*
85385869 T-TATTGATACCATCTTTT
1 TATATCGATACCAT-TTTT
85385887 TATATCGATACCA-TTTT
1 TATATCGATACCATTTTT
*
85385904 TACATCGATACC-TTTT
1 TATATCGATACCATTTT
85385920 ACCAAGTATC
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
17 18 0.40
18 3 0.07
19 13 0.29
20 10 0.22
21 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (18 bp):
TATATCGATACCATTTTT
Found at i:85391733 original size:27 final size:28
Alignment explanation
Indices: 85391702--85391770 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
85391692 TACGGAACAT
*
85391702 AAGGGCATATT-C-GTCATTTTACCATAC
1 AAGGGC-TATTACGGTCACTTTACCATAC
*
85391729 AAGGG-TATTACGGTCACTTTACCCTAC
1 AAGGGCTATTACGGTCACTTTACCATAC
85391756 AAGGGCT-TTACGGTC
1 AAGGGCTATTACGGTC
85391771 TTTTTACTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 4 0.11
26 1 0.03
27 31 0.84
28 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (28 bp):
AAGGGCTATTACGGTCACTTTACCATAC
Found at i:85391776 original size:27 final size:27
Alignment explanation
Indices: 85391714--85391777 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
85391704 GGGCATATTC
85391714 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCATACAAGGGTATTACG
* *
85391741 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTACCATACAAGGG-TATTACG
*
85391768 GTCTTTTTAC
1 GTCATTTTAC
85391778 TTATTAGGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACG
Found at i:85391862 original size:27 final size:27
Alignment explanation
Indices: 85391832--85391966 Score: 87
Period size: 27 Copynumber: 4.9 Consensus size: 27
85391822 GTAAATCCAC
85391832 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTCAGTAATTTTGT
* *
85391859 AAACAAATGGTATTTCTA-TAATTTT-T
1 AAACTAAGGGTATTTC-AGTAATTTTGT
* *
85391885 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAACT-AAGGGTATTTCAGTAATTTTGT
* ** **
85391915 AAA-TCAGGGGTATTTTGGTAATTTTAC
1 AAACT-AAGGGTATTTCAGTAATTTTGT
* * * *
85391942 AAACCAGGGGTATTTTAGCAATTTT
1 AAACTAAGGGTATTTCAGTAATTTT
85391967 ACAAACCAGG
Statistics
Matches: 87, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
26 1 0.01
27 61 0.70
28 7 0.08
29 17 0.20
30 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACTAAGGGTATTTCAGTAATTTTGT
Found at i:85391967 original size:27 final size:27
Alignment explanation
Indices: 85391919--85391976 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
85391909 TTTTGTAAAT
* *
85391919 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTAGCAATTTTACAAAC
85391946 CAGGGGTATTTTAGCAATTTTACAAAC
1 CAGGGGTATTTTAGCAATTTTACAAAC
85391973 CAGG
1 CAGG
85391977 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (27 bp):
CAGGGGTATTTTAGCAATTTTACAAAC
Found at i:85395610 original size:727 final size:727
Alignment explanation
Indices: 85394215--85395668 Score: 2908
Period size: 727 Copynumber: 2.0 Consensus size: 727
85394205 CCACAAATCC
85394215 GACATCAAAATATTTATTTTAGGATTAGTATGAGGCCTAGAATATGAGTATATGCATGTGTTAAA
1 GACATCAAAATATTTATTTTAGGATTAGTATGAGGCCTAGAATATGAGTATATGCATGTGTTAAA
85394280 GTTTTATGAAAAAATTTTAAGTATAAGGTGTCCAATTGGAAATTAGGGACTAAATTGAATAAATT
66 GTTTTATGAAAAAATTTTAAGTATAAGGTGTCCAATTGGAAATTAGGGACTAAATTGAATAAATT
85394345 GAAAAACTTGGATTCTAGAAGCAAATTGTATGATATTGCTTTAGATTATGAATTAGAAGGTCTTG
131 GAAAAACTTGGATTCTAGAAGCAAATTGTATGATATTGCTTTAGATTATGAATTAGAAGGTCTTG
85394410 GAGAGCAATTTTCCCAAATTCTAAATTTTTGGACAAAAATTGGCTTGCATGGATGAAATTTTAAA
196 GAGAGCAATTTTCCCAAATTCTAAATTTTTGGACAAAAATTGGCTTGCATGGATGAAATTTTAAA
85394475 GAAATGGCATAAAGGCATTTTGGTCATTTGTCATTTTAATGAATTAAAATGGGAAAAATCAAGCC
261 GAAATGGCATAAAGGCATTTTGGTCATTTGTCATTTTAATGAATTAAAATGGGAAAAATCAAGCC
85394540 AAAATCAACCATTTTCTCCTTCATCCAGCCGAAAATTTGGAGTTCTCCATAGCTAGGGTTTCAAG
326 AAAATCAACCATTTTCTCCTTCATCCAGCCGAAAATTTGGAGTTCTCCATAGCTAGGGTTTCAAG
85394605 CTTTCCAAGCTCAATAGTAAGTGCTCCCAAGCCCCGTTTTTAATGTTATTTGTATTTTTGAAATC
391 CTTTCCAAGCTCAATAGTAAGTGCTCCCAAGCCCCGTTTTTAATGTTATTTGTATTTTTGAAATC
85394670 CCAGTAGCTTGCTCTCTCCATTTCTACCCATATTTCAAGCTAGGGTTCATGTTAAAAAATTTACC
456 CCAGTAGCTTGCTCTCTCCATTTCTACCCATATTTCAAGCTAGGGTTCATGTTAAAAAATTTACC
85394735 CATGCATGAGTTATTTGTATTTTGATGGATTATGGAGGAATAAGAAAGATAAATGTGTGTTAAAC
521 CATGCATGAGTTATTTGTATTTTGATGGATTATGGAGGAATAAGAAAGATAAATGTGTGTTAAAC
85394800 ATCTTTTCCAAGTTGGTTTTCATGAGAAACCCTTATAGGGACCATTTTGCAAAAGATGTAAATGT
586 ATCTTTTCCAAGTTGGTTTTCATGAGAAACCCTTATAGGGACCATTTTGCAAAAGATGTAAATGT
85394865 GTGGTAGAAATGAAGAAAATATGGAAATTGTGGGCTACCATAAGAAGTAAATGTGTTCGGCTAGG
651 GTGGTAGAAATGAAGAAAATATGGAAATTGTGGGCTACCATAAGAAGTAAATGTGTTCGGCTAGG
85394930 CTTGGGTAAGAT
716 CTTGGGTAAGAT
85394942 GACATCAAAATATTTATTTTAGGATTAGTATGAGGCCTAGAATATGAGTATATGCATGTGTTAAA
1 GACATCAAAATATTTATTTTAGGATTAGTATGAGGCCTAGAATATGAGTATATGCATGTGTTAAA
85395007 GTTTTATGAAAAAATTTTAAGTATAAGGTGTCCAATTGGAAATTAGGGACTAAATTGAATAAATT
66 GTTTTATGAAAAAATTTTAAGTATAAGGTGTCCAATTGGAAATTAGGGACTAAATTGAATAAATT
85395072 GAAAAACTTGGATTCTAGAAGCAAATTGTATGATATTGCTTTAGATTATGAATTAGAAGGTCTTG
131 GAAAAACTTGGATTCTAGAAGCAAATTGTATGATATTGCTTTAGATTATGAATTAGAAGGTCTTG
85395137 GAGAGCAATTTTCCCAAATTCTAAATTTTTGGACAAAAATTGGCTTGCATGGATGAAATTTTAAA
196 GAGAGCAATTTTCCCAAATTCTAAATTTTTGGACAAAAATTGGCTTGCATGGATGAAATTTTAAA
85395202 GAAATGGCATAAAGGCATTTTGGTCATTTGTCATTTTAATGAATTAAAATGGGAAAAATCAAGCC
261 GAAATGGCATAAAGGCATTTTGGTCATTTGTCATTTTAATGAATTAAAATGGGAAAAATCAAGCC
85395267 AAAATCAACCATTTTCTCCTTCATCCAGCCGAAAATTTGGAGTTCTCCATAGCTAGGGTTTCAAG
326 AAAATCAACCATTTTCTCCTTCATCCAGCCGAAAATTTGGAGTTCTCCATAGCTAGGGTTTCAAG
85395332 CTTTCCAAGCTCAATAGTAAGTGCTCCCAAGCCCCGTTTTTAATGTTATTTGTATTTTTGAAATC
391 CTTTCCAAGCTCAATAGTAAGTGCTCCCAAGCCCCGTTTTTAATGTTATTTGTATTTTTGAAATC
85395397 CCAGTAGCTTGCTCTCTCCATTTCTACCCATATTTCAAGCTAGGGTTCATGTTAAAAAATTTACC
456 CCAGTAGCTTGCTCTCTCCATTTCTACCCATATTTCAAGCTAGGGTTCATGTTAAAAAATTTACC
85395462 CATGCATGAGTTATTTGTATTTTGATGGATTATGGAGGAATAAGAAAGATAAATGTGTGTTAAAC
521 CATGCATGAGTTATTTGTATTTTGATGGATTATGGAGGAATAAGAAAGATAAATGTGTGTTAAAC
85395527 ATCTTTTCCAAGTTGGTTTTCATGAGAAACCCTTATAGGGACCATTTTGCAAAAGATGTAAATGT
586 ATCTTTTCCAAGTTGGTTTTCATGAGAAACCCTTATAGGGACCATTTTGCAAAAGATGTAAATGT
85395592 GTGGTAGAAATGAAGAAAATATGGAAATTGTGGGCTACCATAAGAAGTAAATGTGTTCGGCTAGG
651 GTGGTAGAAATGAAGAAAATATGGAAATTGTGGGCTACCATAAGAAGTAAATGTGTTCGGCTAGG
85395657 CTTGGGTAAGAT
716 CTTGGGTAAGAT
85395669 AAAAGTGCAT
Statistics
Matches: 727, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
727 727 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.34
Consensus pattern (727 bp):
GACATCAAAATATTTATTTTAGGATTAGTATGAGGCCTAGAATATGAGTATATGCATGTGTTAAA
GTTTTATGAAAAAATTTTAAGTATAAGGTGTCCAATTGGAAATTAGGGACTAAATTGAATAAATT
GAAAAACTTGGATTCTAGAAGCAAATTGTATGATATTGCTTTAGATTATGAATTAGAAGGTCTTG
GAGAGCAATTTTCCCAAATTCTAAATTTTTGGACAAAAATTGGCTTGCATGGATGAAATTTTAAA
GAAATGGCATAAAGGCATTTTGGTCATTTGTCATTTTAATGAATTAAAATGGGAAAAATCAAGCC
AAAATCAACCATTTTCTCCTTCATCCAGCCGAAAATTTGGAGTTCTCCATAGCTAGGGTTTCAAG
CTTTCCAAGCTCAATAGTAAGTGCTCCCAAGCCCCGTTTTTAATGTTATTTGTATTTTTGAAATC
CCAGTAGCTTGCTCTCTCCATTTCTACCCATATTTCAAGCTAGGGTTCATGTTAAAAAATTTACC
CATGCATGAGTTATTTGTATTTTGATGGATTATGGAGGAATAAGAAAGATAAATGTGTGTTAAAC
ATCTTTTCCAAGTTGGTTTTCATGAGAAACCCTTATAGGGACCATTTTGCAAAAGATGTAAATGT
GTGGTAGAAATGAAGAAAATATGGAAATTGTGGGCTACCATAAGAAGTAAATGTGTTCGGCTAGG
CTTGGGTAAGAT
Found at i:85404333 original size:46 final size:46
Alignment explanation
Indices: 85404283--85404375 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
85404273 GTAAACCATT
85404283 CATTCATCATTTGAAAGAAAGCTTGTTCTGCCTCCTCACTTCGGCC
1 CATTCATCATTTGAAAGAAAGCTTGTTCTGCCTCCTCACTTCGGCC
85404329 CATTCATCATTTGAAAGAAAGCTTGTTCTGCCTCCTCACTTCGGCC
1 CATTCATCATTTGAAAGAAAGCTTGTTCTGCCTCCTCACTTCGGCC
85404375 C
1 C
85404376 TCAAACACGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.32
Consensus pattern (46 bp):
CATTCATCATTTGAAAGAAAGCTTGTTCTGCCTCCTCACTTCGGCC
Found at i:85407102 original size:22 final size:21
Alignment explanation
Indices: 85407077--85407118 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
85407067 CTTTTTAACT
*
85407077 AATTAAGTATTTTGCCATTTTC
1 AATTAAGT-TCTTGCCATTTTC
*
85407099 AATTTAGTTCTTGCCATTTT
1 AATTAAGTTCTTGCCATTTT
85407119 TCTCTAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (21 bp):
AATTAAGTTCTTGCCATTTTC
Found at i:85408348 original size:24 final size:24
Alignment explanation
Indices: 85408317--85408362 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
85408307 TCAATACAGG
85408317 ACAACACCAAAGTACAAAATCAAA
1 ACAACACCAAAGTACAAAATCAAA
* * *
85408341 ACAACACCGAAGTGCATAATCA
1 ACAACACCAAAGTACAAAATCA
85408363 GGATAGCACC
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:0.54, C:0.26, G:0.09, T:0.11
Consensus pattern (24 bp):
ACAACACCAAAGTACAAAATCAAA
Found at i:85426000 original size:40 final size:40
Alignment explanation
Indices: 85425945--85426068 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
85425935 NNNNNNNNNN
*
85425945 CCGGATATAGCAACTCGCACAAATGCCTTCGGGAATTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGAATTAGC
*
85425985 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGAATTAGC
* * *
85426025 CCGGA-ACTAGTCACTAGCACAAATGCCTTCGGGAGTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAATTAGC
85426065 CCGG
1 CCGG
85426069 TTATCATCCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 77 0.99
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.20
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGAATTAGC
Found at i:85429409 original size:49 final size:50
Alignment explanation
Indices: 85429221--85429414 Score: 189
Period size: 49 Copynumber: 3.9 Consensus size: 50
85429211 ATCTATTGTG
* * *
85429221 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT
* * * * * * **
85429272 CGATCACATGTGTAGTACTAAATGCAAGCTAC---GTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * * * *
85429319 AGGTCACGTGTGTAGTACTAAGTCCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* *
85429369 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
85429415 GCTTTGGCTA
Statistics
Matches: 112, Mismatches: 28, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
47 28 0.25
48 7 0.06
49 39 0.35
50 11 0.10
51 27 0.24
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:85434533 original size:51 final size:49
Alignment explanation
Indices: 85434406--85434594 Score: 171
Period size: 49 Copynumber: 3.8 Consensus size: 49
85434396 TATTGTGAGG
* ** *** * *
85434406 TCACGTGTGTAGTACTAAGTGCAACCTACTACATGTACCGGATAATTGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTGA
* *
85434455 TCGCATAGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACAT-GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAA-TT-GA
* * * * * *
85434507 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTGA
* * * *
85434556 TCGCATGTGTGGCACTAAGTGCAGGCTATTATGCGTACC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
85434595 AAATAGCTTT
Statistics
Matches: 111, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 36 0.32
50 34 0.31
51 36 0.32
52 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.29
Consensus pattern (49 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTGA
Found at i:85434594 original size:49 final size:49
Alignment explanation
Indices: 85434411--85434594 Score: 197
Period size: 51 Copynumber: 3.7 Consensus size: 49
85434401 TGAGGTCACG
** ***
85434411 TGTGTAGTACTAAGTGCAACCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
* * * * *
85434460 TAGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 T-GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAA-TT-GGTCGCA
* * *
85434512 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
* * *
85434561 TGTGTGGCACTAAGTGCAGGCTATTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
85434595 AAATAGCTTT
Statistics
Matches: 108, Mismatches: 24, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
49 33 0.31
50 34 0.31
51 36 0.33
52 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
Found at i:85442261 original size:23 final size:22
Alignment explanation
Indices: 85442236--85442277 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
85442226 GAGATCAACA
85442236 AAAATAT-AATCACATACATATT
1 AAAATATCAATCACAT-CATATT
*
85442258 AAAATATCAATCTCATCATA
1 AAAATATCAATCACATCATA
85442278 ATAATCACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATATCAATCACATCATATT
Found at i:85445315 original size:26 final size:26
Alignment explanation
Indices: 85445264--85445315 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
85445254 GATTAAATAT
* *
85445264 TAAATATAATATAATATTTATCTTAA
1 TAAATATAATATAATATTAATATTAA
*
85445290 TAAATATTATATCAAT-TTAATATTAA
1 TAAATATAATAT-AATATTAATATTAA
85445316 AGTGATTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TAAATATAATATAATATTAATATTAA
Found at i:85447234 original size:6 final size:6
Alignment explanation
Indices: 85447216--85447324 Score: 107
Period size: 6 Copynumber: 17.8 Consensus size: 6
85447206 AAGAAACATT
85447216 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
85447263 GTGACAGA ATCAAA ATCAGA ACCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
*
85447314 ATCAGT ATCAG
1 ATCAGA ATCAG
85447325 GTAACAAAAT
Statistics
Matches: 86, Mismatches: 9, Indels: 16
0.77 0.08 0.14
Matches are distributed among these distances:
5 4 0.05
6 73 0.85
7 6 0.07
8 3 0.03
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:85447274 original size:31 final size:31
Alignment explanation
Indices: 85447216--85447345 Score: 110
Period size: 31 Copynumber: 4.2 Consensus size: 31
85447206 AAGAAACATT
85447216 ATCAGAA-CTAGAATCA-G-AATCAGAATCAGA
1 ATCAGAATC-AGAATCAGGTAA-CAGAATCAGA
* *
85447246 ATCAGAATCAGAATCAGGTGACAGAATCAAA
1 ATCAGAATCAGAATCAGGTAACAGAATCAGA
* *
85447277 ATCAGAACCAGAATCA-G-AATTAGGTAA-CAGA
1 ATCAGAATCAGAATCAGGTAA-CA-G-AATCAGA
* * *
85447308 ATCAGAATCAGTATCAGGTAACAAAATTAGA
1 ATCAGAATCAGAATCAGGTAACAGAATCAGA
85447339 ATCAGAA
1 ATCAGAA
85447346 CNTGCAGCGA
Statistics
Matches: 80, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
29 1 0.01
30 18 0.22
31 54 0.68
32 5 0.06
33 2 0.03
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGGTAACAGAATCAGA
Found at i:85447280 original size:37 final size:37
Alignment explanation
Indices: 85447230--85447324 Score: 145
Period size: 37 Copynumber: 2.6 Consensus size: 37
85447220 GAACTAGAAT
*
85447230 CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
* * *
85447267 CAGAATCAAAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
*
85447304 CAGAATCAGAATCAGTATCAG
1 CAGAATCAGAATCAGAATCAG
85447325 GTAACAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:85447307 original size:25 final size:25
Alignment explanation
Indices: 85447230--85447345 Score: 98
Period size: 25 Copynumber: 4.7 Consensus size: 25
85447220 GAACTAGAAT
85447230 CAGAATCAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
85447253 TCAGAATCAG-GTGACAGAATCA--AAA
1 -CAGAATCAGAAT--CAGAATCAGGTAA
* *
85447278 TCAGAACCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGAATCAGGTAA
*
85447304 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
85447329 CAAAATTAGAATCAGAA
1 CAGAATCAGAATCAGAA
85447346 CNTGCAGCGA
Statistics
Matches: 75, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
23 1 0.01
24 16 0.21
25 55 0.73
26 3 0.04
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.17
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:85447612 original size:27 final size:27
Alignment explanation
Indices: 85447582--85447937 Score: 444
Period size: 27 Copynumber: 13.2 Consensus size: 27
85447572 AACACCCTAG
* *
85447582 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
**
85447609 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
** *
85447636 GGGTAAAATAAAAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
85447663 GGGTAAAATAGTAATTCTATCAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
**
85447690 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
85447717 GGGTAAAACAGTAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
85447744 GGGTAAAATAGTAACTCTGTAAACCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
85447771 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
**
85447798 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
85447825 GGGTAAACT-GATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
* *
85447852 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
85447879 GGGTAAAATAATAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
85447906 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
85447933 GGGTA
1 GGGTA
85447938 CTTTGATAAT
Statistics
Matches: 283, Mismatches: 44, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 281 0.99
28 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:85447773 original size:108 final size:108
Alignment explanation
Indices: 85447582--85447937 Score: 561
Period size: 108 Copynumber: 3.3 Consensus size: 108
85447572 AACACCCTAG
* * * *
85447582 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAA
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAG
* * * *
85447647 AAATTTTGTAAATTGAGGGTAAAATAGTAATTCTATCAATCGA
66 TAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
*
85447690 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAATAG
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAG
* *
85447755 TAACTCTGTAAACCGAGGGTAAAATAGTAATTCTATAAATCGA
66 TAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
* *
85447798 GGGTAAAACGGTAATTTTGTAAATCGAGGGT-AAACTGATAATTTTGTAAATCGAGGGTAAAACA
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAG-TAATTTTGTAAATCGAGGGTAAAATA
*
85447862 GTAATTCTGTAAATCGAGGGTAAAATAATAATTCTATAAATCGA
65 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
*
85447906 GGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 GGGTAAAACGGTAATTTTGTAAATCGAGGGTA
85447938 CTTTGATAAT
Statistics
Matches: 228, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
107 5 0.02
108 223 0.98
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.30
Consensus pattern (108 bp):
GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAG
TAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
Found at i:85447947 original size:27 final size:26
Alignment explanation
Indices: 85447782--85448059 Score: 135
Period size: 27 Copynumber: 10.3 Consensus size: 26
85447772 GGTAAAATAG
* *** *
85447782 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGT-ATTTGA
* **
85447809 TAATTTTGTAAATCGAGGGTAAACTGA
1 TAATTTTATAAATCGAGGGT-ATTTGA
* ****
85447836 TAATTTTGTAAATCGAGGGTAAAACA
1 TAATTTTATAAATCGAGGGTATTTGA
* * ** *
85447862 GTAATTCTGTAAATCGAGGGTAAAATAA
1 -TAATTTTATAAATCGAGGGT-ATTTGA
* ** *
85447890 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTTTATAAATCGAGGGT-ATTTGA
*
85447917 TAATTTTGTAAATCGAGGGTACTTTGA
1 TAATTTTATAAATCGAGGGTA-TTTGA
* ** *
85447944 TAATTTTACATGTCGAGGGTATTTTA
1 TAATTTTATAAATCGAGGGTATTTGA
* *
85447970 GTAATTTT-TCAAATTGATGGTATTTCGA
1 -TAATTTTAT-AAATCGAGGGTATTT-GA
* * * *
85447998 TAATTTTACAAATTGAGGATATTTGGG
1 TAATTTTATAAATCGAGGGTATTT-GA
* *
85448025 TAATTTTATAAACCGAGGGTACTTTGG
1 TAATTTTATAAATCGAGGGTA-TTTGA
85448052 TAATTTTA
1 TAATTTTA
85448060 CAACTGGGGG
Statistics
Matches: 204, Mismatches: 39, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
26 8 0.04
27 188 0.92
28 8 0.04
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.37
Consensus pattern (26 bp):
TAATTTTATAAATCGAGGGTATTTGA
Found at i:85447974 original size:54 final size:54
Alignment explanation
Indices: 85447582--85448062 Score: 310
Period size: 54 Copynumber: 8.9 Consensus size: 54
85447572 AACACCCTAG
* * *** * **
85447582 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
** * ** *
85447636 GGGTAAAATAAAAATTTTGTAAATTGAGGGTAAAAT-AGTAATTCTATC-AATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGA-TAATTTTA-CAAATCGA
** *** ** *
85447690 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAA-AACAGTAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGA-TAATTTTACAAATCGA
* * * ** * *
85447744 GGGTAAAATAGTAACTCTGTAAACCGAGGGTAAAAT-AGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGA-TAATTTTACAAATCGA
** ** **
85447798 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAACTGATAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
* * ** * * *
85447852 GGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
* * **
85447906 GGGTAAAATGGTAATTTTGTAAATCGAGGGTACTTTGATAATTTTACATGTCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
*** * * *
85447960 GGGTATTTTAGTAATTTT-TCAAATTGATGGT-ATTTCGATAATTTTACAAATTGA
1 GGGTAAAATAGTAATTTTGT-AAATCGAGGGTAATTT-GATAATTTTACAAATCGA
* ** * * * * *
85448014 GGAT-ATTTGGGTAATTTTATAAACCGAGGGTACTTTGGTAATTTTACAA
1 GGGTAAAAT-AGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAA
85448063 CTGGGGGTAT
Statistics
Matches: 344, Mismatches: 72, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
53 8 0.02
54 330 0.96
55 6 0.02
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.33
Consensus pattern (54 bp):
GGGTAAAATAGTAATTTTGTAAATCGAGGGTAATTTGATAATTTTACAAATCGA
Found at i:85450682 original size:18 final size:17
Alignment explanation
Indices: 85450655--85450693 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
85450645 ATTTTGTAAA
85450655 AATTCATAAAAGGACTT
1 AATTCATAAAAGGACTT
* *
85450672 AATTGCATAAAATGAGTT
1 AATT-CATAAAAGGACTT
85450690 AATT
1 AATT
85450694 TTGCTATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (17 bp):
AATTCATAAAAGGACTT
Found at i:85451159 original size:37 final size:37
Alignment explanation
Indices: 85451098--85451757 Score: 522
Period size: 37 Copynumber: 18.3 Consensus size: 37
85451088 AATGAATATC
* * *
85451098 GATTCTATTG-AAGTGCT-GAACGAGCAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
*
85451133 GATTCTACTAAAAGTGCTCAAACGAGCAATATCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
85451170 GATTCTATTGAACGTGCTCAAACAAG--A-A---A-T
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * * *
85451200 -A-TCTACTGAAAGTGCTC-AATGGGCAAT-GCCACA
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
85451233 GATCCTACTGAATGTGCTCAAACGAG-AATGTCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * *
85451269 GATTTTACTGGAAGTGCTCAAACAAGCAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
85451306 GATTCTACTGAAAGTGCTCAAACGAGTAATACCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
85451343 GGTACTACAGAAAGTGCTC-AACGAGCAATATCTA--
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * * * *
85451377 -ATCCTATTGAATA-TGATCAAATGAACAATGTCTACT
1 GATTCTACTGAA-AGTGCTCAAACGAGCAATATCTACT
* *
85451413 GATTCTACTGAAAGTGCTCAAACAAGAAATATCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
85451450 GATTCTACTAAAAGTGCTC-AACGAGAAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * * * * *
85451486 GATCCTACTGAATGTGCTCAACCAAGCAATGTTTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* *
85451523 GATTCTACT-AAAGTTCTCAAATGAGCAATATCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
85451559 GGTTCTACT-AGAAGTGCTC-AACAAGCAATATCTGCT
1 GATTCTACTGA-AAGTGCTCAAACGAGCAATATCTACT
* * ** * *
85451595 GATCCTACTGAATGTAATCAAACAAGCAATGTCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* *
85451632 GATTCTACTG-AAGTGCTCAAACGAGAAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
85451668 GATTCTACTGATTAGTTGCTCAAACAAGCAATATCTATT
1 GATTCTACTGA-AAG-TGCTCAAACGAGCAATATCTACT
* * * *
85451707 GATTATACTGAATGCTTGCTCAAACGAGCATTATCCACT
1 GATTCTACTGAAAG--TGCTCAAACGAGCAATATCTACT
*
85451746 GATTATACTGAA
1 GATTCTACTGAA
85451758 TAAGATTTTT
Statistics
Matches: 493, Mismatches: 104, Indels: 52
0.76 0.16 0.08
Matches are distributed among these distances:
27 3 0.01
28 14 0.03
29 2 0.00
30 1 0.00
31 1 0.00
32 1 0.00
33 11 0.02
34 15 0.03
35 26 0.05
36 163 0.33
37 190 0.39
38 3 0.01
39 63 0.13
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (37 bp):
GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
Found at i:85451325 original size:73 final size:73
Alignment explanation
Indices: 85451237--85451757 Score: 457
Period size: 73 Copynumber: 7.1 Consensus size: 73
85451227 GCCACAGATC
* * *
85451237 CTACTGAATGTGCTCAAACGAG-AATGTCTACTGATTTTACTGGAAGTGCTCAAACAAGCAATAT
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACT-GAAGTGCTCAAACAAGCAATAT
*
85451301 CTATTGATT
65 CTACTGATT
* * * * * * *
85451310 CTACTGAAAGTGCTCAAACGAGTAATACCTATTGGTACTACAGAAAGTGCTC-AACGAGCAATAT
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTG-AAGTGCTCAAACAAGCAATAT
*
85451374 CTA---ATC
65 CTACTGATT
* * * * * *
85451380 CTATTGAATA-TGATCAAATGAACAATGTCTACTGATTCTACTGAAAGTGCTCAAACAAGAAATA
1 CTACTGAA-AGTGCTCAAACGAGCAATATCTACTGATTCTACTG-AAGTGCTCAAACAAGCAATA
85451444 TCTACTGATT
64 TCTACTGATT
* * * * * *
85451454 CTACTAAAAGTGCTC-AACGAGAAATATCTATTGATCCTACTGAATGTGCTCAACCAAGCAATGT
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAA-GTGCTCAAACAAGCAATAT
* *
85451518 TTATTGATT
65 CTACTGATT
* * *
85451527 CTACT-AAAGTTCTCAAATGAGCAATATCTACTGGTTCTACTAGAAGTGCTC-AACAAGCAATAT
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACT-GAAGTGCTCAAACAAGCAATAT
* *
85451590 CTGCTGATC
65 CTACTGATT
* ** * * * *
85451599 CTACTGAATGTAATCAAACAAGCAATGTCTACTGATTCTACTGAAGTGCTCAAACGAGAAATATC
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAGTGCTCAAACAAGCAATATC
*
85451664 TATTGATT
66 TACTGATT
* * * * *
85451672 CTACTGATTAGTTGCTCAAACAAGCAATATCTATTGATTATACTGAATGCTTGCTCAAACGAGCA
1 CTACTGA-AAG-TGCTCAAACGAGCAATATCTACTGATTCTACTGAA-G--TGCTCAAACAAGCA
* *
85451737 TTATCCACTGATT
61 ATATCTACTGATT
*
85451750 ATACTGAA
1 CTACTGAA
85451758 TAAGATTTTT
Statistics
Matches: 355, Mismatches: 75, Indels: 32
0.77 0.16 0.07
Matches are distributed among these distances:
70 41 0.12
71 14 0.04
72 39 0.11
73 165 0.46
74 36 0.10
75 30 0.08
76 1 0.00
78 29 0.08
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.30
Consensus pattern (73 bp):
CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAGTGCTCAAACAAGCAATATC
TACTGATT
Found at i:85454632 original size:17 final size:17
Alignment explanation
Indices: 85454612--85454645 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
85454602 AAATAGATTT
85454612 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
85454629 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
85454646 ACCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:85463876 original size:40 final size:40
Alignment explanation
Indices: 85463809--85463949 Score: 189
Period size: 40 Copynumber: 3.5 Consensus size: 40
85463799 ACCCAAGTAT
*
85463809 CTTCGGGAT-TTAG-CCGGATATAACAACTAGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTAGCACAAATGC
*
85463848 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
* * *
85463888 CTTCGGATCTTAGTCCGGATATAGTC-ACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
85463928 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
85463950 CATTCGAATA
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 11 0.12
40 77 0.86
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:85467066 original size:48 final size:47
Alignment explanation
Indices: 85466991--85467140 Score: 183
Period size: 48 Copynumber: 3.1 Consensus size: 47
85466981 CACATGGTAG
* * * * *
85466991 GATGCCAATGTCATATCCCAGATATGGTCTTACATGCGATCACATATC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATG-GATCATATATC
* * *
85467039 GATGCCAATGCTATGTTCCAAACATGGTCTTACATGGGATCATAGATC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACAT-GGATCATATATC
* *
85467087 GATGCCAATGCCGTGTCCCAGACATGGTCTTACATTGGATCATATATC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACA-TGGATCATATATC
85467135 GATGCC
1 GATGCC
85467141 GATATCCCAG
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
48 85 0.98
49 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (47 bp):
GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGATCATATATC
Found at i:85470533 original size:49 final size:49
Alignment explanation
Indices: 85470473--85470643 Score: 163
Period size: 49 Copynumber: 3.5 Consensus size: 49
85470463 TGTTGTGTGT
*
85470473 CAGTGTAAGACCTATCT-GGATCATGGCATCAACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGA-CATGGCATCAAC-CTCGATAGATGAAAGC
* * ** * *
85470522 CAGTGTAAGACCTGTCTGGGACACGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
* * * **
85470571 CAGTGTAAGACCTATCTGGGACATGGCATCGACTTTGA-AG-TGCTAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
85470618 CAGTGTAAGACC-ATCTTTGGGACATG
1 CAGTGTAAGACCTATC--TGGGACATG
85470644 ACGTCGGCAT
Statistics
Matches: 102, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
46 3 0.03
47 16 0.16
48 11 0.11
49 69 0.68
50 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
Found at i:85472553 original size:49 final size:49
Alignment explanation
Indices: 85472493--85472663 Score: 163
Period size: 49 Copynumber: 3.5 Consensus size: 49
85472483 TGTTGTGTGT
*
85472493 CAGTGTAAGACCTATCT-GGATCATGGCATCAACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGA-CATGGCATCAAC-CTCGATAGATGAAAGC
* * ** * *
85472542 CAGTGTAAGACCTGTCTGGGACACGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
* * * **
85472591 CAGTGTAAGACCTATCTGGGACATGGCATCGACTTTGA-AG-TGCTAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
85472638 CAGTGTAAGACC-ATCTTTGGGACATG
1 CAGTGTAAGACCTATC--TGGGACATG
85472664 ACGTCGGCAT
Statistics
Matches: 102, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
46 3 0.03
47 16 0.16
48 11 0.11
49 69 0.68
50 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
Found at i:85473906 original size:7 final size:7
Alignment explanation
Indices: 85473894--85473923 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
85473884 TAATTCACAC
85473894 GGGCTCG
1 GGGCTCG
85473901 GGGCTCG
1 GGGCTCG
85473908 GGGCTCG
1 GGGCTCG
*
85473915 GGGCACG
1 GGGCTCG
85473922 GG
1 GG
85473924 CGTGTTCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.03, C:0.27, G:0.60, T:0.10
Consensus pattern (7 bp):
GGGCTCG
Found at i:85478141 original size:19 final size:19
Alignment explanation
Indices: 85478117--85478157 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
85478107 ATCTCATTTC
85478117 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTA-ATTA
85478136 ATTCATTTGCATTTAATTA
1 ATTCATTTGCATTTAATTA
85478155 ATT
1 ATT
85478158 TACTTTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTCATTTGCATTTAATTA
Found at i:85479887 original size:2 final size:2
Alignment explanation
Indices: 85479880--85479915 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
85479870 CTCATTCTTC
*
85479880 AT AT AT AT AT AT AT AT AT AT AT TT 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
85479916 TCATATTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:85480336 original size:45 final size:45
Alignment explanation
Indices: 85480277--85480367 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
85480267 CCAAAACATG
*
85480277 TGTCACATACATCATGAACTCTGA-CCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTC-AATCCACAACTCAATGAGTTCAGA
* * *
85480322 TGTCATATATATCATGAACTCAATCCACAACTCAATGTGTTCAGA
1 TGTCACATACATCATGAACTCAATCCACAACTCAATGAGTTCAGA
85480367 T
1 T
85480368 CACATAGTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.02
45 40 0.98
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAATCCACAACTCAATGAGTTCAGA
Found at i:85499652 original size:45 final size:45
Alignment explanation
Indices: 85499556--85499726 Score: 224
Period size: 45 Copynumber: 3.9 Consensus size: 45
85499546 CGAATTCATC
* * *
85499556 CACCGGCATT-TCGCTTGCTAGGCTCGAA-GCCCG-ATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATTT
* * *
85499598 CTCCAGCATTATAGCCTGCCAGGCTCAAAGGCCCGAATAGTATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
* *
85499643 CACCGGCATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
*
85499688 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
85499727 TTACTGTACG
Statistics
Matches: 112, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
42 8 0.07
43 14 0.12
44 5 0.04
45 84 0.75
46 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
Found at i:85505920 original size:92 final size:92
Alignment explanation
Indices: 85505816--85506000 Score: 361
Period size: 92 Copynumber: 2.0 Consensus size: 92
85505806 TTAACATTAT
85505816 AGTCCATCAAACTTTCATTCATCAATTTCTATCATCAAACACAAATTTTTGCAATTTCCTATCAT
1 AGTCCATCAAACTTTCATTCATCAATTTCTATCATCAAACACAAATTTTTGCAATTTCCTATCAT
85505881 GACCGAATACACAATTAACCAACACTC
66 GACCGAATACACAATTAACCAACACTC
85505908 AGTCCATCAAACTTTCATTCATCAATTTCTATCATCAAACACAAATTTTTGCAATTTCCTATCAT
1 AGTCCATCAAACTTTCATTCATCAATTTCTATCATCAAACACAAATTTTTGCAATTTCCTATCAT
*
85505973 GACCGAATGCACAATTAACCAACACTC
66 GACCGAATACACAATTAACCAACACTC
85506000 A
1 A
85506001 ACAAATTAAT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (92 bp):
AGTCCATCAAACTTTCATTCATCAATTTCTATCATCAAACACAAATTTTTGCAATTTCCTATCAT
GACCGAATACACAATTAACCAACACTC
Found at i:85512672 original size:16 final size:17
Alignment explanation
Indices: 85512651--85512688 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
85512641 TGAATAAATT
*
85512651 ATTAAAAAATCAA-AAA
1 ATTAAAAAATAAATAAA
85512667 ATTAAAAAATAAATAAA
1 ATTAAAAAATAAATAAA
85512684 ATTAA
1 ATTAA
85512689 TTTTGTCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
ATTAAAAAATAAATAAA
Found at i:85520694 original size:16 final size:16
Alignment explanation
Indices: 85520673--85520708 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
85520663 TTTGGTTCGC
85520673 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
85520689 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
85520705 TGTA
1 TGTA
85520709 ATGAAATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:85520718 original size:16 final size:16
Alignment explanation
Indices: 85520683--85520742 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 16
85520673 TGTATTGGAT
* * *
85520683 TAGAGGTGTATTGGAT
1 TAGAGGTGTAATGAAA
85520699 TAGAGGTGTAATGAAA
1 TAGAGGTGTAATGAAA
*
85520715 TAGAGATGTAATGAAA
1 TAGAGGTGTAATGAAA
*
85520731 TAGAAGTGTAAT
1 TAGAGGTGTAAT
85520743 AGCAAATCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (16 bp):
TAGAGGTGTAATGAAA
Found at i:85520771 original size:45 final size:44
Alignment explanation
Indices: 85520720--85520811 Score: 114
Period size: 45 Copynumber: 2.1 Consensus size: 44
85520710 TGAAATAGAG
*
85520720 ATGTAATGAAATAGAAGTGTAATAGCAAATC-AACTGTTTGGTTGA
1 ATGTAATGAAATAGAAGCGTAATAG-AAATCTAA-TGTTTGGTTGA
* * * *
85520765 ATGTAATGGAATAGAGGCGTAATAGTAATCTTATGTTTGGTTGA
1 ATGTAATGAAATAGAAGCGTAATAGAAATCTAATGTTTGGTTGA
85520809 ATG
1 ATG
85520812 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
44 18 0.44
45 23 0.56
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (44 bp):
ATGTAATGAAATAGAAGCGTAATAGAAATCTAATGTTTGGTTGA
Found at i:85521114 original size:16 final size:16
Alignment explanation
Indices: 85521070--85521116 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
85521060 TACTATAAAA
*
85521070 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
85521086 TATTATT-AAATATAT
1 TATAATTAAAATATAT
85521101 TATAATTAAAATATAT
1 TATAATTAAAATATAT
85521117 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:85521188 original size:120 final size:121
Alignment explanation
Indices: 85520954--85521490 Score: 886
Period size: 120 Copynumber: 4.5 Consensus size: 121
85520944 ATTTAATTAT
* * *
85520954 ATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
85521019 ATCAATA-TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
*
85521074 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
85521138 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
*
85521194 AATT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
85521258 ATCAAAATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * *
85521314 ATTTGAA-TTAATTAATATTAAAAATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
85521378 ATCAACATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * * *
85521434 ATTTGAA-GTAATTAATATTAAAAATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
85521491 TAAAATAATT
Statistics
Matches: 401, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
119 65 0.16
120 334 0.83
121 2 0.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
Found at i:85521236 original size:18 final size:17
Alignment explanation
Indices: 85521215--85521249 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
85521205 TTATTATTAA
*
85521215 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
85521233 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
85521250 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:85521266 original size:16 final size:15
Alignment explanation
Indices: 85521241--85521270 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
85521231 ATATATAATT
85521241 TAATAAAATTCTTAA
1 TAATAAAATTCTTAA
85521256 TAATCAAAATTCTTA
1 TAAT-AAAATTCTTA
85521271 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATAAAATTCTTAA
Found at i:85521541 original size:47 final size:46
Alignment explanation
Indices: 85521472--85521639 Score: 143
Period size: 47 Copynumber: 3.7 Consensus size: 46
85521462 TTAATTAAAA
*
85521472 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
85521519 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
85521564 TA-AT-AATAATATATAATTTCATAA-AATTCGTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
85521610 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
85521640 ATATTAAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
43 3 0.03
44 22 0.23
45 9 0.09
46 8 0.08
47 46 0.48
48 7 0.07
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:85521548 original size:101 final size:92
Alignment explanation
Indices: 85521487--85521663 Score: 254
Period size: 91 Copynumber: 1.9 Consensus size: 92
85521477 GATTTAATAA
* *
85521487 AATTT-AAAATAATT-ATAACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAT
1 AATTTCAAAA-AATTCATAA-TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAA
85521550 TATTAAATATAATTTAA-TAATAATATAT
64 TATTAAATATAATTTAATTAATAATATAT
* * * *
85521578 AATTTCATAAAATTCGTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTCATAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATA
85521643 TTAAATATAATTTAA-TAATAA
66 TTAAATATAATTTAATTAATAA
85521664 AATGTTCTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
91 73 0.94
92 5 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (92 bp):
AATTTCAAAAAATTCATAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATA
TTAAATATAATTTAATTAATAATATAT
Found at i:85521659 original size:17 final size:15
Alignment explanation
Indices: 85521628--85521666 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
85521618 TTTATACAAT
85521628 TTAAAATAATTAATA
1 TTAAAATAATTAATA
85521643 TTAAATATAATTTAATA
1 TTAAA-ATAA-TTAATA
*
85521660 ATAAAAT
1 TTAAAAT
85521667 GTTCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATAATTAATA
Found at i:85521699 original size:360 final size:353
Alignment explanation
Indices: 85520978--85521621 Score: 836
Period size: 360 Copynumber: 1.8 Consensus size: 353
85520968 ATTATTAAAT
*
85520978 ATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATCTTATATGAATTTACT
1 ATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAACATCTTATATGAATTTACT
* * *
85521043 CAAATCATAATATATGATACTATAAAATATAATTTAACATAATTATTATTAAATATATTATAATT
66 AAAATCATAATATATGATACTATAAAATATAATTTAACATAATTAATATTAAAAATATTATAATT
* * *
85521108 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAA
131 AAAATATATAATTTAATAAAATTCTAAATAATTAATATACTTATATGAAATTA-T---ATCAT-A
* *
85521173 TATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAAATATATA
191 TATATGATACTAT-AAATATAAATTAAAATAATTATTATTAAATATAATTTAATTAAAATATATA
* * *
85521238 ATTTAATAAAATTCTTAATAATCAAAATTCTTATATGAATTTACTAAAATCATAATATATGATAC
255 ATTTAATAAAATTCGTAATAATCAAAATTCTTATATGAATTTACTAAAATAATAATATATGATAA
* * * *
85521303 TATAAAATATAATTTGAATTAATTAATATTAAAA
320 TATAAAATAAAATTTGAATTAACTAAAATAAAAA
*
85521337 ATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAACATTCTTATATGAATTTAC
1 ATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAACA-TCTTATATGAATTTAC
* *
85521402 TAAAATCATAATATATGATACTATAAAATATAATTTGAA-GTAATTAATATTAAAAATATTTTAA
65 TAAAATCATAATATATGATACTATAAAATATAATTT-AACATAATTAATATTAAAAATATTATAA
*
85521466 TTAAAATATATGATTTAATAAAATT-TAAAATAATT-ATA-AC-TA-AT-AAATT-T-TC-T-TA
129 TTAAAATATATAATTTAATAAAATTCT-AAATAATTAATATACTTATATGAAATTATATCATATA
** *
85521521 TATGA-A-T-T-TGTATAATTTAAAATAATTATTATTAAATATAATTTAA-TAATAATATATAAT
193 TATGATACTATAAATATAAATTAAAATAATTATTATTAAATATAATTTAATTAA-AATATATAAT
* * *
85521581 TTCATAAAATTCGTGATAAT-AAATTTTCTTATATGAATTTA
257 TTAATAAAATTCGTAATAATCAAA-ATTCTTATATGAATTTA
85521622 TACAATTTAA
Statistics
Matches: 260, Mismatches: 20, Indels: 28
0.84 0.06 0.09
Matches are distributed among these distances:
340 6 0.02
341 76 0.29
343 1 0.00
344 1 0.00
345 1 0.00
346 7 0.03
348 1 0.00
349 2 0.01
353 1 0.00
355 4 0.02
356 2 0.01
357 2 0.01
358 1 0.00
359 50 0.19
360 103 0.40
361 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (353 bp):
ATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAACATCTTATATGAATTTACT
AAAATCATAATATATGATACTATAAAATATAATTTAACATAATTAATATTAAAAATATTATAATT
AAAATATATAATTTAATAAAATTCTAAATAATTAATATACTTATATGAAATTATATCATATATAT
GATACTATAAATATAAATTAAAATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAA
TAAAATTCGTAATAATCAAAATTCTTATATGAATTTACTAAAATAATAATATATGATAATATAAA
ATAAAATTTGAATTAACTAAAATAAAAA
Found at i:85525339 original size:3 final size:3
Alignment explanation
Indices: 85525333--85525505 Score: 346
Period size: 3 Copynumber: 57.7 Consensus size: 3
85525323 AATTTTTTTT
85525333 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
85525381 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
85525429 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
85525477 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
85525506 TGGTGAGGAC
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 170 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:85532093 original size:53 final size:53
Alignment explanation
Indices: 85531937--85532102 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
85531927 GACGAAAAAT
* **
85531937 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
85531989 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
85532042 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
85532096 TATGTGA
1 -ATGTGA
85532103 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:85535973 original size:43 final size:44
Alignment explanation
Indices: 85535870--85535973 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 44
85535860 TCTGGGAAGT
* * * * ** *
85535870 TGGCATCGATTTTTGATTTATGTGTAAAACCATGTTTGGGACAT
1 TGGCATCGATATTTGATTTACGCGTAAAACCATGTCTACGACAG
* * *
85535914 TGGCATTG-TATATGATTT-CGCGTAAAACCCTGTCTACGACAG
1 TGGCATCGATATTTGATTTACGCGTAAAACCATGTCTACGACAG
85535956 TGGCATCGATATTTGATT
1 TGGCATCGATATTTGATT
85535974 ACATGTAAGA
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
42 24 0.51
43 16 0.34
44 7 0.15
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (44 bp):
TGGCATCGATATTTGATTTACGCGTAAAACCATGTCTACGACAG
Found at i:85536004 original size:43 final size:43
Alignment explanation
Indices: 85535846--85536004 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
85535836 TATGTGTCGT
* * *
85535846 CGTGTAAGACCATGTCTGGGA-AGTTGGCATCGATTTTTGATTTA
1 CGTGTAAAACCACGTCTGGGACA-TTGGCATCGATATTTGA-TTA
* * * * * *
85535890 TGTGTAAAACCATGTTTGGGACATTGGCATTG-TATATGATTT
1 CGTGTAAAACCACGTCTGGGACATTGGCATCGATATTTGATTA
* ** *
85535932 CGCGTAAAACC-CTGTCTACGACAGTGGCATCGATATTTGATTA
1 CGTGTAAAACCAC-GTCTGGGACATTGGCATCGATATTTGATTA
* *
85535975 CATGTAAGACCACGTCTGGGACATTGGCAT
1 CGTGTAAAACCACGTCTGGGACATTGGCAT
85536005 TGTACAAGCT
Statistics
Matches: 88, Mismatches: 23, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
42 25 0.28
43 35 0.40
44 27 0.31
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
CGTGTAAAACCACGTCTGGGACATTGGCATCGATATTTGATTA
Found at i:85556515 original size:26 final size:27
Alignment explanation
Indices: 85556486--85556536 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
85556476 AATATTAACA
85556486 TAATTAAATAATACTTA-TATTTTTGG
1 TAATTAAATAATACTTATTATTTTTGG
*
85556512 TAATTAAATAATATTTATTATTTTT
1 TAATTAAATAATACTTATTATTTTT
85556537 TATGATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (27 bp):
TAATTAAATAATACTTATTATTTTTGG
Found at i:85556546 original size:22 final size:22
Alignment explanation
Indices: 85556519--85556581 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
85556509 TGGTAATTAA
85556519 ATAATATTTATTATTTTTTATG
1 ATAATATTTATTATTTTTTATG
* *
85556541 ATAATA-GTATT-TATATTTATG
1 ATAATATTTATTAT-TTTTTATG
85556562 ATAAATATTATATTATTTTT
1 AT-AATATT-TATTATTTTT
85556582 ATTTTTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
20 1 0.03
21 13 0.41
22 10 0.31
24 7 0.22
25 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (22 bp):
ATAATATTTATTATTTTTTATG
Found at i:85556559 original size:21 final size:23
Alignment explanation
Indices: 85556535--85556583 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
85556525 TTTATTATTT
85556535 TTTATGAT-AATAGTAT-TTATA
1 TTTATGATAAATAGTATATTATA
* *
85556556 TTTATGATAAATATTATATTATT
1 TTTATGATAAATAGTATATTATA
85556579 TTTAT
1 TTTAT
85556584 TTTTAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.33
22 7 0.29
23 9 0.38
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (23 bp):
TTTATGATAAATAGTATATTATA
Found at i:85556635 original size:30 final size:30
Alignment explanation
Indices: 85556563--85556643 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 30
85556553 ATATTTATGA
85556563 TAAATATTATATTATTTTTATTTTTAATAT
1 TAAATATTATATTATTTTTATTTTTAATAT
*
85556593 TAAGATA-AATATTATTTAACTT-TTTTT-A-AT
1 TAA-ATATTATATTATTT---TTATTTTTAATAT
*
85556623 TAAATATTATATTATATTTAT
1 TAAATATTATATTATTTTTAT
85556644 GATAAATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
27 2 0.05
28 1 0.02
29 3 0.07
30 25 0.60
31 4 0.10
32 5 0.12
33 2 0.05
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (30 bp):
TAAATATTATATTATTTTTATTTTTAATAT
Found at i:85556857 original size:19 final size:18
Alignment explanation
Indices: 85556833--85556878 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
85556823 GGATTTTTAC
85556833 TAAAATTAAAAATATTATT
1 TAAAATTAAAAATATTA-T
* *
85556852 TAAAATTGAAATTATTAT
1 TAAAATTAAAAATATTAT
85556870 TAAAATTAA
1 TAAAATTAA
85556879 TATTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TAAAATTAAAAATATTAT
Found at i:85559531 original size:30 final size:30
Alignment explanation
Indices: 85559490--85559546 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
85559480 AATCGATTTC
*
85559490 AAGCATAGGGGTAAAATGGTCATTTTGTGA
1 AAGCATAGGGGTAAAATAGTCATTTTGTGA
*
85559520 AAGCCTAGGGGTAAAATAGTCATTTTG
1 AAGCATAGGGGTAAAATAGTCATTTTG
85559547 CCCAATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (30 bp):
AAGCATAGGGGTAAAATAGTCATTTTGTGA
Found at i:85562895 original size:19 final size:19
Alignment explanation
Indices: 85562871--85562911 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
85562861 TGTTCATTTC
85562871 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTA-ATTA
85562890 ATTCATTTGCATTTAATTA
1 ATTCATTTGCATTTAATTA
85562909 ATT
1 ATT
85562912 TAATTTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTCATTTGCATTTAATTA
Found at i:85562917 original size:20 final size:20
Alignment explanation
Indices: 85562876--85562917 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
85562866 ATTTCATTCA
*
85562876 TTGCATTTAGATTAATTCAT
1 TTGCATTTAGATTAATTAAT
85562896 TTGCATTTA-ATTAATTTAAT
1 TTGCATTTAGATTAA-TTAAT
85562916 TT
1 TT
85562918 AACACCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (20 bp):
TTGCATTTAGATTAATTAAT
Found at i:85564391 original size:21 final size:21
Alignment explanation
Indices: 85564365--85564407 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
85564355 GAAGAATGAC
85564365 GCCTTAATCCAAATCCAAGTA
1 GCCTTAATCCAAATCCAAGTA
85564386 GCCTTAATCCAAATCCAAGTA
1 GCCTTAATCCAAATCCAAGTA
85564407 G
1 G
85564408 AAACACTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (21 bp):
GCCTTAATCCAAATCCAAGTA
Found at i:85581953 original size:39 final size:41
Alignment explanation
Indices: 85581858--85582041 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
85581848 TTGAATGATG
*
85581858 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
85581897 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
85581937 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
85581976 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
85582016 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
85582042 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:85581993 original size:79 final size:81
Alignment explanation
Indices: 85581858--85582041 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
85581848 TTGAATGATG
85581858 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
85581921 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
85581936 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
85581997 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
85582016 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
85582042 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:85582063 original size:79 final size:79
Alignment explanation
Indices: 85581910--85582074 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
85581900 GGACTAAGAT
* ** *
85581910 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
85581975 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
85581989 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
85582051 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
85582068 CCGAAGG
1 CCGAAGG
85582075 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:85582777 original size:47 final size:47
Alignment explanation
Indices: 85582720--85582813 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
85582710 GGCTAGTTGA
85582720 ATCATAGAAACCATGAAATAGGTAAAGGCTACCTTAAAGGCAGATGC
1 ATCATAGAAACCATGAAATAGGTAAAGGCTACCTTAAAGGCAGATGC
* * *
85582767 ATCATGGAAACTATGAAATAGGTAAAGTCTACCTTAAAGGCAGATGC
1 ATCATAGAAACCATGAAATAGGTAAAGGCTACCTTAAAGGCAGATGC
85582814 TGGCAGCAGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.21
Consensus pattern (47 bp):
ATCATAGAAACCATGAAATAGGTAAAGGCTACCTTAAAGGCAGATGC
Found at i:85589941 original size:39 final size:41
Alignment explanation
Indices: 85589846--85590029 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
85589836 TTGAATGATG
*
85589846 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
85589885 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
85589925 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
85589964 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
85590004 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
85590030 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:85589981 original size:79 final size:81
Alignment explanation
Indices: 85589846--85590029 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
85589836 TTGAATGATG
85589846 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
85589909 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
85589924 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
85589985 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
85590004 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
85590030 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:85590051 original size:79 final size:79
Alignment explanation
Indices: 85589898--85590062 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
85589888 GGACTAAGAT
* ** *
85589898 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
85589963 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
85589977 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
85590039 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
85590056 CCGAAGG
1 CCGAAGG
85590063 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:85604252 original size:25 final size:24
Alignment explanation
Indices: 85604206--85604254 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
85604196 TACGAGCCTA
* *
85604206 TAATGGGTAGCTTCGAAGAGCCAT
1 TAATGGGGAGCTCCGAAGAGCCAT
*
85604230 TAATCGGGGAGCTCCGAATAGCCAT
1 TAAT-GGGGAGCTCCGAAGAGCCAT
85604255 ATATCGAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (24 bp):
TAATGGGGAGCTCCGAAGAGCCAT
Found at i:85608156 original size:25 final size:26
Alignment explanation
Indices: 85608090--85608161 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
85608080 TATTTTCTCG
85608090 AAATTTTATTAGGGGTAAAATCGTCA
1 AAATTTTATTAGGGGTAAAATCGTCA
** *
85608116 AAATTTTACCATGGGTAAAATCGTC-
1 AAATTTTATTAGGGGTAAAATCGTCA
85608141 AAATTTTATT-GAGGGTAAAAT
1 AAATTTTATTAG-GGGTAAAAT
85608162 AGGTATGAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
25 17 0.44
26 22 0.56
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (26 bp):
AAATTTTATTAGGGGTAAAATCGTCA
Found at i:85609009 original size:18 final size:17
Alignment explanation
Indices: 85608988--85609028 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
85608978 ACCTTTCCTT
85608988 TTAAAAATTATTATTATC
1 TTAAAAA-TATTATTATC
* *
85609006 TTAAAAATATTGTTTTC
1 TTAAAAATATTATTATC
85609023 TTAAAA
1 TTAAAA
85609029 TTTTTTATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (17 bp):
TTAAAAATATTATTATC
Found at i:85610737 original size:18 final size:21
Alignment explanation
Indices: 85610701--85610741 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 21
85610691 GAAGACATTT
85610701 TTTTTTTACAATATCTTCTTC
1 TTTTTTTACAATATCTTCTTC
85610722 TTTTTTT-CAA-AT-TTCTTC
1 TTTTTTTACAATATCTTCTTC
85610740 TT
1 TT
85610742 AAATTGGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
20 3 0.15
21 7 0.35
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTTTACAATATCTTCTTC
Found at i:85625389 original size:16 final size:17
Alignment explanation
Indices: 85625363--85625396 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
85625353 TTCAATACAT
85625363 ATTCATCATTCAACTCA
1 ATTCATCATTCAACTCA
*
85625380 ATTC-TCATTCAATTCA
1 ATTCATCATTCAACTCA
85625396 A
1 A
85625397 CAATAACACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTCATCATTCAACTCA
Found at i:85626477 original size:22 final size:19
Alignment explanation
Indices: 85626452--85626494 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 19
85626442 TTCATCATCC
85626452 TATAAAAATCTCATAATATAAT
1 TATAAAAAT-T-AT-ATATAAT
*
85626474 TATATAAATTATATATAAT
1 TATAAAAATTATATATAAT
85626493 TA
1 TA
85626495 ATTAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 1 0.05
22 8 0.40
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAAAAATTATATATAAT
Found at i:85632743 original size:16 final size:16
Alignment explanation
Indices: 85632724--85632765 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
85632714 AATCTCATAA
85632724 TATAATTAATATAAAT
1 TATAATTAATATAAAT
*
85632740 TATAATTTA-ATAAAT
1 TATAATTAATATAAAT
85632755 TAATAA-TAATA
1 T-ATAATTAATA
85632766 ATAATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAATTAATATAAAT
Found at i:85632763 original size:3 final size:3
Alignment explanation
Indices: 85632755--85632781 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
85632745 TTTAATAAAT
85632755 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
85632782 ATATCTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:85632769 original size:25 final size:26
Alignment explanation
Indices: 85632721--85632770 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
85632711 AAAAATCTCA
*
85632721 TAATATAATTAATATAAATTATAATT
1 TAATATAATTAATATAAATAATAATT
85632747 TAATA-AATTAATA-ATAATAATAAT
1 TAATATAATTAATATA-AATAATAAT
85632771 AATAATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 16 0.73
26 5 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TAATATAATTAATATAAATAATAATT
Found at i:85652828 original size:147 final size:147
Alignment explanation
Indices: 85652579--85652870 Score: 566
Period size: 147 Copynumber: 2.0 Consensus size: 147
85652569 CAGATGAGGG
85652579 TGAAACCTAATAAGGGAATCCATAGATCGAGTTAATGCAATTCTAGGGTGTTAATTAGAAAGAGA
1 TGAAACCTAATAAGGGAATCCATAGATCGAGTTAATGCAATTCTAGGGTGTTAATTAGAAAGAGA
*
85652644 TTTTAATTATTCAACCTAGGGTTAGACGTTATTAGTCTCGAGAGAGATAATAATATAACTTAGGG
66 TTTCAATTATTCAACCTAGGGTTAGACGTTATTAGTCTCGAGAGAGATAATAATATAACTTAGGG
85652709 ATTTCTACGGATCAAAA
131 ATTTCTACGGATCAAAA
*
85652726 TGAAACCTAATAAGGGAATCCATAGATCGAGTTAATGTAATTCTAGGGTGTTAATTAGAAAGAGA
1 TGAAACCTAATAAGGGAATCCATAGATCGAGTTAATGCAATTCTAGGGTGTTAATTAGAAAGAGA
85652791 TTTCAATTATTCAACCTAGGGTTAGACGTTATTAGTCTCGAGAGAGATAATAATATAACTTAGGG
66 TTTCAATTATTCAACCTAGGGTTAGACGTTATTAGTCTCGAGAGAGATAATAATATAACTTAGGG
85652856 ATTTCTACGGATCAA
131 ATTTCTACGGATCAA
85652871 GTCAAATGAA
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 143 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (147 bp):
TGAAACCTAATAAGGGAATCCATAGATCGAGTTAATGCAATTCTAGGGTGTTAATTAGAAAGAGA
TTTCAATTATTCAACCTAGGGTTAGACGTTATTAGTCTCGAGAGAGATAATAATATAACTTAGGG
ATTTCTACGGATCAAAA
Found at i:85656962 original size:40 final size:40
Alignment explanation
Indices: 85656858--85657078 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
85656848 TATTCGAATG
* *
85656858 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTGACT
* * * *
85656899 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
85656939 ATATCCGGGCCAAAACCCCAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
85656979 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * **
85657019 ATATCCGGGCTAAGACTCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
85657058 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
85657079 ATACTTGGGT
Statistics
Matches: 149, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
37 1 0.01
38 12 0.08
39 15 0.10
40 93 0.62
41 28 0.19
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:85664200 original size:40 final size:40
Alignment explanation
Indices: 85664099--85664310 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
85664089 TATTCGAATG
* * *
85664099 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
85664140 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
85664180 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * *
85664220 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * **
85664260 ATATCTGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
85664299 ATATCC-GGCTAA
1 ATATCCGGGCTAA
85664311 ATCTCGAAGA
Statistics
Matches: 145, Mismatches: 26, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
38 6 0.04
39 15 0.10
40 96 0.66
41 28 0.19
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:85665724 original size:46 final size:46
Alignment explanation
Indices: 85665672--85666169 Score: 638
Period size: 46 Copynumber: 10.8 Consensus size: 46
85665662 TCTTTCTGAA
* * *
85665672 ATGAAATGCGTAAGGCCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
85665718 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
85665764 ATGAAATGAACAAGACCTTGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
85665810 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
85665856 ATGAAATGAACAAGACCTTGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
85665902 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
85665948 ATGAAATGAACAAGACCTTGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
85665994 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
85666040 ATGAAATGAACAAGACCTTGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
85666086 GGGGAATGAATAAGACCATGGTTGAAAGATACCATGGAAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
85666132 A-GAAACTGAGTAAGACCATAGTTGAAAGACACTATGGC
1 ATGAAA-TGAGTAAGACCATGGTTGAAAGATACCATGGC
85666170 GTCATGTCAA
Statistics
Matches: 385, Mismatches: 66, Indels: 2
0.85 0.15 0.00
Matches are distributed among these distances:
45 3 0.01
46 382 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:85665829 original size:92 final size:92
Alignment explanation
Indices: 85665690--85666169 Score: 809
Period size: 92 Copynumber: 5.2 Consensus size: 92
85665680 CGTAAGGCCA
85665690 TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAG
1 TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAG
85665755 CAACGTGACATGAAATGAACAAGACCT
66 CAACGTGACATGAAATGAACAAGACCT
85665782 TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAG
1 TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAG
85665847 CAACGTGACATGAAATGAACAAGACCT
66 CAACGTGACATGAAATGAACAAGACCT
85665874 TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAG
1 TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAG
85665939 CAACGTGACATGAAATGAACAAGACCT
66 CAACGTGACATGAAATGAACAAGACCT
85665966 TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAG
1 TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAG
85666031 CAACGTGACATGAAATGAACAAGACCT
66 CAACGTGACATGAAATGAACAAGACCT
*** * ** *
85666058 TGGTTGAAAGATACCATGGCAACATGACGGGGAATGAATAAGACCATGGTTGAAAGATACCATGG
1 TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAG
* * ** *
85666123 AAACATGACA-GAAACTGAGTAAGACCA
66 CAACGTGACATGAAA-TGAACAAGACCT
* * *
85666150 TAGTTGAAAGACACTATGGC
1 TGGTTGAAAGATACCATGGC
85666170 GTCATGTCAA
Statistics
Matches: 372, Mismatches: 15, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
91 4 0.01
92 368 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (92 bp):
TGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAG
CAACGTGACATGAAATGAACAAGACCT
Found at i:85667764 original size:15 final size:15
Alignment explanation
Indices: 85667744--85667774 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
85667734 TTTTACTTAG
*
85667744 TAGTTTTATTTAATT
1 TAGTTTAATTTAATT
85667759 TAGTTTAATTTAATT
1 TAGTTTAATTTAATT
85667774 T
1 T
85667775 TTATAGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TAGTTTAATTTAATT
Found at i:85668404 original size:49 final size:49
Alignment explanation
Indices: 85668329--85668425 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
85668319 TCCCACTATG
*
85668329 AATGCCAAGTTGAGAAATGATATTACATCATTTCGACAATTTGAAGATT
1 AATGCCAAGTTGAGAAATGATATTACATCATTTCAACAATTTGAAGATT
* * *
85668378 AATGCCGAGTTGAGAAATGATGTTACATCCTTTCAACAATTTGAAGAT
1 AATGCCAAGTTGAGAAATGATATTACATCATTTCAACAATTTGAAGAT
85668426 GAAATGCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (49 bp):
AATGCCAAGTTGAGAAATGATATTACATCATTTCAACAATTTGAAGATT
Found at i:85672591 original size:23 final size:23
Alignment explanation
Indices: 85672545--85672591 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
85672535 ATAGAGAAAT
* *
85672545 TAAATTTTTTTTGGAAAAAGTAG
1 TAAATCTTTTTTGGAAAAACTAG
85672568 TAAATCTTTTTT-GAAAAGACTAG
1 TAAATCTTTTTTGGAAAA-ACTAG
85672591 T
1 T
85672592 CTATCAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (23 bp):
TAAATCTTTTTTGGAAAAACTAG
Found at i:85677667 original size:44 final size:44
Alignment explanation
Indices: 85677599--85677690 Score: 166
Period size: 44 Copynumber: 2.1 Consensus size: 44
85677589 AACCAGGTGA
*
85677599 GTAATCGTTCACCACTCAATTACTGTCAAAGCCAATAGACGTGT
1 GTAACCGTTCACCACTCAATTACTGTCAAAGCCAATAGACGTGT
*
85677643 GTAACCGTTCACCACTCAATTACTGTCAAAGCCAATAGAGGTGT
1 GTAACCGTTCACCACTCAATTACTGTCAAAGCCAATAGACGTGT
85677687 GTAA
1 GTAA
85677691 TCACACCCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (44 bp):
GTAACCGTTCACCACTCAATTACTGTCAAAGCCAATAGACGTGT
Done.