Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 71 of 172
Found at i:23470604 original size:14 final size:14
Alignment explanation
Indices: 23470585--23470614 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23470575 TTATATCGAG
23470585 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
23470599 ACCAATCCAATTCA
1 ACCAATCCAAATCA
23470613 AC
1 AC
23470615 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:23472520 original size:54 final size:52
Alignment explanation
Indices: 23472450--23472601 Score: 169
Period size: 53 Copynumber: 2.8 Consensus size: 52
23472440 AACATTTTAT
* *
23472450 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTT-GTAATTTTACAAACCA-GGGTATTTTGGTAATTTTACAAACCAA
* * * * *
23472504 GGGTATTTTAGCAATTTTACAGACCAGGATATTTTGGTAATTTTACTAATCAA
1 GGGTATTTT-GTAATTTTACAAACCAGGGTATTTTGGTAATTTTACAAACCAA
** *
23472557 GGGTATTTTGATAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 GGGTATTTTG-TAATTTTACAAACC-AGGGTATTTTGGTAATTTT
23472602 GTAAATCGAG
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
52 1 0.01
53 42 0.51
54 39 0.48
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (52 bp):
GGGTATTTTGTAATTTTACAAACCAGGGTATTTTGGTAATTTTACAAACCAA
Found at i:23472545 original size:26 final size:27
Alignment explanation
Indices: 23472450--23472601 Score: 180
Period size: 27 Copynumber: 5.7 Consensus size: 27
23472440 AACATTTTAT
*
23472450 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
23472477 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
23472504 GGGTATTTTAGCAATTTTACAGACCA-
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
23472530 GGATATTTTGGTAATTTTACTAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
23472557 GGGTATTTTGATAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
23472584 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
23472602 GTAAATCGAG
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 20 0.19
27 86 0.81
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:23472572 original size:80 final size:80
Alignment explanation
Indices: 23472453--23472601 Score: 219
Period size: 80 Copynumber: 1.9 Consensus size: 80
23472443 ATTTTATGGG
* * *
23472453 TATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGCAA
1 TATTTTGGTAATTTTACAAACTAAGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTAGCAA
23472518 TTTTACAGACCAGGA
66 TTTTACAGACCAGGA
* ** *
23472533 TATTTTGGTAATTTTACTAA-TCAAGGGTATTTTGATAATTTTGTAAACCAAGGGTATTTTAGTA
1 TATTTTGGTAATTTTACAAACT-AAGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTAGCA
23472597 ATTTT
65 ATTTT
23472602 GTAAATCGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 1 0.02
80 60 0.98
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (80 bp):
TATTTTGGTAATTTTACAAACTAAGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTAGCAA
TTTTACAGACCAGGA
Found at i:23472602 original size:27 final size:27
Alignment explanation
Indices: 23472450--23472642 Score: 140
Period size: 27 Copynumber: 7.2 Consensus size: 27
23472440 AACATTTTAT
* * * *
23472450 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTAGTAATTTTATAAACCAA
* * *
23472477 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTATAAACCAA
* * *
23472504 GGGTATTTTAGCAATTTTACAGACC-A
1 GGGTATTTTAGTAATTTTATAAACCAA
* * *
23472530 GGATATTTTGGTAATTTTACT-AATCAA
1 GGGTATTTTAGTAATTTTA-TAAACCAA
*
23472557 GGGTATTTT-GATAATTTTGTAAACCAA
1 GGGTATTTTAG-TAATTTTATAAACCAA
* * *
23472584 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTATAAACCAA
*** * * *
23472611 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTATTTTAGTAATTTTATAAACCAA
23472638 GGGTA
1 GGGTA
23472643 AAATAGTAAT
Statistics
Matches: 140, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 20 0.14
27 119 0.85
28 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTATAAACCAA
Found at i:23472643 original size:27 final size:27
Alignment explanation
Indices: 23472568--23472655 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 27
23472558 GGTATTTTGA
* * ***
23472568 TAATTTTGTAAACCAAGGGTATTTTAG
1 TAATTCTGTAAATCAAGGGTAAAATAG
* *
23472595 TAATTTTGTAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCAAGGGTAAAATAG
23472622 TAATTCTGTAAATCAAGGGTAAAATAG
1 TAATTCTGTAAATCAAGGGTAAAATAG
23472649 TAATTCT
1 TAATTCT
23472656 ATAANNNNNN
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (27 bp):
TAATTCTGTAAATCAAGGGTAAAATAG
Found at i:23484859 original size:18 final size:18
Alignment explanation
Indices: 23484820--23484952 Score: 182
Period size: 18 Copynumber: 7.5 Consensus size: 18
23484810 AATGATATGT
*
23484820 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTGC
*
23484837 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTGC
*
23484855 AATCTTAGATATGATAG-
1 AATCTTAGATATGATTGC
*
23484872 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTGC
*
23484890 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTGC
23484907 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTGC
*
23484925 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TGC
23484944 AATCTTAGA
1 AATCTTAGA
23484953 AGATATGATT
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
17 44 0.43
18 47 0.46
19 11 0.11
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTGC
Found at i:23484860 original size:35 final size:35
Alignment explanation
Indices: 23484811--23484950 Score: 226
Period size: 35 Copynumber: 3.9 Consensus size: 35
23484801 ATAATCTTCA
*
23484811 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAAAT
*
23484847 ATGATTGCAATCTTAGATATGATAGAATCTTAAAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAAAT
*
23484882 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAAAT
23484917 ATGATTGCAATCTTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTA
23484951 GAAGATATGA
Statistics
Matches: 98, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
35 82 0.84
36 5 0.05
37 11 0.11
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAAAT
Found at i:23490457 original size:16 final size:16
Alignment explanation
Indices: 23490436--23490473 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
23490426 TTCTATTTCA
23490436 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
* *
23490452 AAAAAAAAATAAAGAG
1 AAAAAAAAAGAAAAAG
23490468 AAAAAA
1 AAAAAA
23490474 GAAAAAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:23490460 original size:20 final size:23
Alignment explanation
Indices: 23490435--23490480 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
23490425 CTTCTATTTC
23490435 AAAAAA-AAA-AG-AAAAAGAAA
1 AAAAAATAAAGAGAAAAAAGAAA
23490455 AAAAAATAAAGAGAAAAAAGAAA
1 AAAAAATAAAGAGAAAAAAGAAA
23490478 AAA
1 AAA
23490481 TGGAGAGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.26
21 3 0.13
22 2 0.09
23 12 0.52
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (23 bp):
AAAAAATAAAGAGAAAAAAGAAA
Found at i:23490481 original size:20 final size:20
Alignment explanation
Indices: 23490435--23490481 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
23490425 CTTCTATTTC
23490435 AAAAAAA-AAAGAAAAAGAA
1 AAAAAAATAAAGAAAAAGAA
23490454 AAAAAAATAAAGAGAAAA-AA
1 AAAAAAATAAAGA-AAAAGAA
*
23490474 GAAAAAAT
1 AAAAAAAT
23490482 GGAGAGGCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 7 0.28
20 14 0.56
21 4 0.16
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (20 bp):
AAAAAAATAAAGAAAAAGAA
Found at i:23491177 original size:44 final size:44
Alignment explanation
Indices: 23491117--23491298 Score: 165
Period size: 44 Copynumber: 4.1 Consensus size: 44
23491107 CAAAGAAACA
* * * *
23491117 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAGT
1 AGATCTGGCATTCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * **
23491161 AGATCTGACATTCCTGTGCTTACAGCGAAGCAGATTGAAGATTTC
1 AGATCTGGCATTCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
23491206 AG--CATGGCA-TCCTTATGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATTCC-TGTGTTTATAGGGAACAGA-TCGAAGATAGC
* *
23491249 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATCTGGCATTCCTGTGTTTATAGGGAACAGATCGAAGATAGC
23491293 AGATCT
1 AGATCT
23491299 AACCTTCAGA
Statistics
Matches: 107, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
42 1 0.01
43 17 0.16
44 74 0.69
45 15 0.14
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
AGATCTGGCATTCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:23491496 original size:119 final size:119
Alignment explanation
Indices: 23491288--23491881 Score: 983
Period size: 119 Copynumber: 5.0 Consensus size: 119
23491278 CAGATCGAAG
*
23491288 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * *
23491353 TTATAAGGAACAAATCGAGGACATAGTAGATTTGAATCTCAGACGTTCTCAAAG
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
*
23491407 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGGCATTCTTGTG
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTT-GGCATTCTTGTG
23491472 -TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
65 TTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
23491526 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * *
23491591 TTACAAGGAACAAATCAAGGACATAACAGATTTGACTCCCAGACATTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * *
23491645 ATAACAGATCTAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
*
23491710 TTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * *
23491764 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * *
23491829 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
23491882 CAGATTCAAG
Statistics
Matches: 445, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
118 12 0.03
119 421 0.95
120 12 0.03
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
Found at i:23492024 original size:84 final size:83
Alignment explanation
Indices: 23491805--23492074 Score: 450
Period size: 83 Copynumber: 3.2 Consensus size: 83
23491795 GAAGCAGATC
*
23491805 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
*
23491870 AATGTTCTCAAACAGATT
66 AATGTTCTCAAACAGACT
* *
23491888 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCCTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
23491953 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
23491971 CAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTC
*
23492036 AAATGTTCTCAAAAAGACT
65 AAATGTTCTCAAACAGACT
* *
23492055 CAAGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
23492075 ACAAATCGAA
Statistics
Matches: 175, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
83 98 0.56
84 77 0.44
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:23492507 original size:18 final size:18
Alignment explanation
Indices: 23492468--23492565 Score: 146
Period size: 18 Copynumber: 5.5 Consensus size: 18
23492458 AATGATATGT
23492468 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
23492485 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
23492503 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
23492520 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
23492538 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
23492557 AATCTTAGA
1 AATCTTAGA
23492566 AGATATGATT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
17 29 0.40
18 32 0.44
19 11 0.15
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:23492508 original size:35 final size:35
Alignment explanation
Indices: 23492459--23492563 Score: 165
Period size: 35 Copynumber: 2.9 Consensus size: 35
23492449 ATAATCTTCA
*
23492459 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAAAT
*
23492495 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAAAT
23492530 ATGATTGCAATCTTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTA
23492564 GAAGATATGA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
35 49 0.75
36 5 0.08
37 11 0.17
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAAAT
Found at i:23505394 original size:23 final size:23
Alignment explanation
Indices: 23505364--23505430 Score: 125
Period size: 23 Copynumber: 2.9 Consensus size: 23
23505354 AAATAAAAAT
23505364 CCTATATAATTTAATTAGTAAAC
1 CCTATATAATTTAATTAGTAAAC
*
23505387 CCTATATAATTTAATTAGTAAAT
1 CCTATATAATTTAATTAGTAAAC
23505410 CCTATATAATTTAATTAGTAA
1 CCTATATAATTTAATTAGTAA
23505431 TCGCCTATCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.42
Consensus pattern (23 bp):
CCTATATAATTTAATTAGTAAAC
Found at i:23509387 original size:18 final size:17
Alignment explanation
Indices: 23509360--23509425 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 17
23509350 TAATTTTGAA
23509360 ATTT-AAAAATAATTAAT
1 ATTTAAAAAATAA-TAAT
*
23509377 ATTTAAAAAATAAACAAT
1 ATTTAAAAAAT-AATAAT
23509395 -TTCATAAAAAAATAATAAT
1 ATT--T-AAAAAATAATAAT
23509414 ATTTTAAAAAAT
1 A-TTTAAAAAAT
23509426 TTTATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
17 6 0.15
18 16 0.40
19 9 0.22
20 7 0.17
21 2 0.05
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAAAAAATAATAAT
Found at i:23511359 original size:25 final size:26
Alignment explanation
Indices: 23511310--23511364 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
23511300 AATGATGACG
23511310 AAAACAATAATAATAGCAATAGTA-T
1 AAAACAATAATAATAGCAATAGTATT
* *
23511335 AAAACGATAATAATA-CATATGGTATT
1 AAAACAATAATAATAGCA-ATAGTATT
23511361 AAAA
1 AAAA
23511365 TATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.08
25 19 0.73
26 5 0.19
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.25
Consensus pattern (26 bp):
AAAACAATAATAATAGCAATAGTATT
Found at i:23511541 original size:20 final size:22
Alignment explanation
Indices: 23511495--23511558 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
23511485 TGATATTTAC
*
23511495 AATATATATGTACATAATATATAT
1 AATATACATGTACAT-A-ATATAT
*
23511519 AATATGCATG-ACATAATAT-T
1 AATATACATGTACATAATATAT
*
23511539 AATATACATGTGCATAATAT
1 AATATACATGTACATAATAT
23511559 GCAGTATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 10 0.29
21 12 0.34
22 1 0.03
23 4 0.11
24 8 0.23
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (22 bp):
AATATACATGTACATAATATAT
Found at i:23515607 original size:21 final size:21
Alignment explanation
Indices: 23515567--23515606 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
23515557 ATTTTTTTTA
23515567 AAAATACAAAATTCATAAAAG
1 AAAATACAAAATTCATAAAAG
23515588 AAAATA-AAAATAT-ATAAAA
1 AAAATACAAAAT-TCATAAAA
23515607 ATTCAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (21 bp):
AAAATACAAAATTCATAAAAG
Found at i:23515658 original size:26 final size:26
Alignment explanation
Indices: 23515588--23515644 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
23515578 TTCATAAAAG
*
23515588 AAAATAAAAAT-ATATAAAAATTCAAA
1 AAAATAAAAATCATA-AAATATTCAAA
23515614 AAAATAAAAATCATAAAATATTCAAA
1 AAAATAAAAATCATAAAATATTCAAA
23515640 AAAAT
1 AAAAT
23515645 TCAAAATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 26 0.90
27 3 0.10
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (26 bp):
AAAATAAAAATCATAAAATATTCAAA
Found at i:23515677 original size:34 final size:33
Alignment explanation
Indices: 23515593--23515685 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 33
23515583 AAAAGAAAAT
*
23515593 AAAAATATATAAAAATTCAAAAAAATAAAAATCA
1 AAAAATATATAAAAATTC-AAAAAATAAAAATAA
* * ** *
23515627 TAAAATATTCAAAAAAATTCAAAATGTAAAATGTAA
1 AAAAATA-T-ATAAAAATTCAAAAAATAAAA-ATAA
23515663 AAAAATATATAAAAATTCAAAAA
1 AAAAATATATAAAAATTCAAAAA
23515686 CAATACGTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
34 19 0.40
35 11 0.23
36 17 0.36
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (33 bp):
AAAAATATATAAAAATTCAAAAAATAAAAATAA
Found at i:23515699 original size:34 final size:32
Alignment explanation
Indices: 23515593--23515701 Score: 80
Period size: 34 Copynumber: 3.2 Consensus size: 32
23515583 AAAAGAAAAT
*
23515593 AAAAATATATAAAAATTCAAAAAAATA-AAAA
1 AAAAATATATAAAAATTCAAAAAAATAGTAAA
*
23515624 TCATAAAATATTCAAAAAAATTCAAAATGTAAA-ATGT-AA
1 --A-AAAATA-T-ATAAAAATTCAAAA---AAATA-GTAAA
23515663 AAAAATATATAAAAATTCAAAAACAATACGTAAA
1 AAAAATATATAAAAATTCAAAAA-AATA-GTAAA
23515697 AAAAA
1 AAAAA
23515702 GAGCATGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 21
0.71 0.05 0.24
Matches are distributed among these distances:
31 1 0.02
32 2 0.03
33 4 0.07
34 26 0.43
35 2 0.03
36 19 0.31
37 1 0.02
38 1 0.02
39 5 0.08
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (32 bp):
AAAAATATATAAAAATTCAAAAAAATAGTAAA
Found at i:23520696 original size:10 final size:9
Alignment explanation
Indices: 23520676--23520700 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23520666 CAAGAGAAAT
23520676 AAAATAAAA
1 AAAATAAAA
23520685 AAAATAAAA
1 AAAATAAAA
23520694 AAAATAA
1 AAAATAA
23520701 TTATATACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAA
Found at i:23524084 original size:170 final size:170
Alignment explanation
Indices: 23523802--23524138 Score: 568
Period size: 170 Copynumber: 2.0 Consensus size: 170
23523792 AAAATTATTC
23523802 TTCACTCATGATCTTGAGAAGAAAGGTGACATAGAAGTTCAAAAAATTCGTTCTAATGATAATTT
1 TTCACTCATGATCTTGAGAAGAAAGGTGACATAGAAGTTCAAAAAATTCGTTCTAATGATAATTT
* * *
23523867 AGCAAATCTTTTTACCAAGGCATTGCCAACTTTAACATTTGAAAGACTACGAAACAAGATTGGAA
66 AGCAAATCCTTTTACCAAGGCATTGCCAACTTCAACATTTGAAAGACTACGAAACAAGATTGAAA
* *
23523932 TGTGTTGAATCAAAGATATAATCTGATGTTGGCATTAAGG
131 TGTGTCGAATCAAAGATATAATCTGATGTTGCCATTAAGG
*
23523972 TTCACTCATGATCTTGAGAAGAAAGGTGACATAGAAGTTCAAAAAATTCGTTCTAGTGATAATTT
1 TTCACTCATGATCTTGAGAAGAAAGGTGACATAGAAGTTCAAAAAATTCGTTCTAATGATAATTT
* * *
23524037 AGTAGATCCTTTTACCAA-GCAATTGCCAACTTCAACATTTGAAAGACTATGAAACAAGATTGAA
66 AGCAAATCCTTTTACCAAGGC-ATTGCCAACTTCAACATTTGAAAGACTACGAAACAAGATTGAA
*
23524101 ATGTGTCGACTCAAAGATATAATCTGATGTTGCCATTA
130 ATGTGTCGAATCAAAGATATAATCTGATGTTGCCATTA
23524139 GGGGGAGTCT
Statistics
Matches: 156, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
169 2 0.01
170 154 0.99
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (170 bp):
TTCACTCATGATCTTGAGAAGAAAGGTGACATAGAAGTTCAAAAAATTCGTTCTAATGATAATTT
AGCAAATCCTTTTACCAAGGCATTGCCAACTTCAACATTTGAAAGACTACGAAACAAGATTGAAA
TGTGTCGAATCAAAGATATAATCTGATGTTGCCATTAAGG
Found at i:23529509 original size:40 final size:41
Alignment explanation
Indices: 23529465--23529561 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
23529455 TAACTATGAT
** *
23529465 TGGCACTAAGTGTGCTGTTTA-ATATAGCTTCGGCTATA-AA
1 TGGCACTAAGTGTGC-GAGTAGACATAGCTTCGGCTATATAA
*
23529505 TGGCACTAAGTGTGCGAGTAGGCATAGCTTCGGCTATATAA
1 TGGCACTAAGTGTGCGAGTAGACATAGCTTCGGCTATATAA
23529546 -GGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
23529562 TACCGACTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.06
40 46 0.90
41 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTAGACATAGCTTCGGCTATATAA
Found at i:23531438 original size:27 final size:27
Alignment explanation
Indices: 23531407--23531584 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23531397 TAAATTGTAC
23531407 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
23531434 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23531460 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
23531488 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
23531516 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23531543 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
23531570 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23531585 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:23531521 original size:82 final size:81
Alignment explanation
Indices: 23531408--23531563 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23531398 AAATTGTACA
* *
23531408 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
23531472 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
23531489 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
23531554 TGCGAGTTGA
65 TGCGAATTGA
23531564 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:23531575 original size:82 final size:81
Alignment explanation
Indices: 23531404--23531584 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
23531394 GATTAAATTG
* *
23531404 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
23531469 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
23531485 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
23531549 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
23531567 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
23531585 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:23536419 original size:34 final size:34
Alignment explanation
Indices: 23536381--23536447 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
23536371 TCTATTTGAA
23536381 CATCGAGCAAGTAAGGTAAGTCTCCGTAATTACT
1 CATCGAGCAAGTAAGGTAAGTCTCCGTAATTACT
23536415 CATCGAGCAAGTAAGGTAAGTCTCCGTAATTAC
1 CATCGAGCAAGTAAGGTAAGTCTCCGTAATTAC
23536448 CGTAGAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (34 bp):
CATCGAGCAAGTAAGGTAAGTCTCCGTAATTACT
Found at i:23537926 original size:16 final size:17
Alignment explanation
Indices: 23537895--23537928 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
23537885 GATAAAAAAT
*
23537895 GAATACTACGATATAAA
1 GAATAATACGATATAAA
23537912 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
23537928 G
1 G
23537929 CAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:23538494 original size:13 final size:14
Alignment explanation
Indices: 23538470--23538535 Score: 61
Period size: 13 Copynumber: 4.9 Consensus size: 14
23538460 GCGATACATA
23538470 ATATACATAAAATAT
1 ATATA-ATAAAATAT
23538485 ATATAA-AAAATA-
1 ATATAATAAAATAT
*
23538497 ATAT-A-AAAATGAA
1 ATATAATAAAAT-AT
23538510 ATATAATAAAGAT-T
1 ATATAATAAA-ATAT
23538524 ATATAATAAAAT
1 ATATAATAAAAT
23538536 GTAATATGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
11 6 0.13
12 5 0.11
13 12 0.27
14 12 0.27
15 8 0.18
16 2 0.04
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (14 bp):
ATATAATAAAATAT
Found at i:23538534 original size:29 final size:27
Alignment explanation
Indices: 23538467--23538542 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
23538457 TTTGCGATAC
*
23538467 ATAATATACATAAAAT-ATATATAAAAA
1 ATAATATA-ATAAAATGAAATATAAAAA
23538494 ATAATAT-A-AAAATGAAATATAATAAA
1 ATAATATAATAAAATGAAATATAA-AAA
* *
23538520 GATTATATAATAAAATGTAATAT
1 -ATAATATAATAAAATGAAATAT
23538543 GAACATATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.12
25 8 0.20
26 3 0.07
27 13 0.32
28 1 0.02
29 11 0.27
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (27 bp):
ATAATATAATAAAATGAAATATAAAAA
Found at i:23538633 original size:44 final size:43
Alignment explanation
Indices: 23538585--23538744 Score: 115
Period size: 44 Copynumber: 3.8 Consensus size: 43
23538575 ATGAAGTAAC
*
23538585 AATATATATAAGTAATTAATAAATATAATATATGAAAATATAAT
1 AATATATATAAGTAATTAATAAATATAATATAAGAAAA-ATAAT
* *
23538629 AATATATCTAAG-AGATGT-A-AAATAATAATTTAAGAAAAATAAT
1 AATATATATAAGTA-AT-TAATAAAT-ATAATATAAGAAAAATAAT
*
23538672 -ATATA-ATAAGTAA-TAATAATATATAAT-TAA-AAATAATACT
1 AATATATATAAGTAATTAATAA-ATATAATATAAGAAA-AATAAT
* * *
23538712 TATA-ATA-AAATAATTTTATAATATATAATATAA
1 AATATATATAAGTAA-TTAATAA-ATATAATATAA
23538745 AAGTAAAATT
Statistics
Matches: 96, Mismatches: 7, Indels: 27
0.74 0.05 0.21
Matches are distributed among these distances:
39 4 0.04
40 15 0.16
41 16 0.17
42 21 0.22
43 13 0.14
44 26 0.27
45 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (43 bp):
AATATATATAAGTAATTAATAAATATAATATAAGAAAAATAAT
Found at i:23538672 original size:3 final size:3
Alignment explanation
Indices: 23538666--23538725 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
23538656 ATTTAAGAAA
* * *
23538666 AAT AAT ATAT AAT AAGT AAT AAT AAT ATAT AATT AAA AAT AAT ACT TAT
1 AAT AAT A-AT AAT AA-T AAT AAT AAT A-AT AA-T AAT AAT AAT AAT AAT
23538715 AAT AA- AAT AAT
1 AAT AAT AAT AAT
23538726 TTTATAATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 2 0.04
3 32 0.70
4 12 0.26
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:23538689 original size:20 final size:19
Alignment explanation
Indices: 23538666--23538725 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
23538656 ATTTAAGAAA
*
23538666 AATAATATATAATAAGTAAT
1 AATAATATATAATAA-AAAT
23538686 AATAATATATAATTAAAAAT
1 AATAATATATAA-TAAAAAT
*
23538706 AATACT-TATAAT-AAAAT
1 AATAATATATAATAAAAAT
23538723 AAT
1 AAT
23538726 TTTATAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
17 8 0.22
18 1 0.03
19 5 0.14
20 20 0.54
21 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AATAATATATAATAAAAAT
Found at i:23538704 original size:37 final size:41
Alignment explanation
Indices: 23538663--23538746 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
23538653 ATAATTTAAG
*
23538663 AAAAATAATA-TATAAT-AAGTAA-TAATAATATATAAT-T
1 AAAAATAATACTATAATAAAATAATTAATAATATATAATAT
*
23538700 AAAAATAATACTTATAATAAAATAATTTTATAATATATAATAT
1 AAAAATAATAC-TATAATAAAATAA-TTAATAATATATAATAT
23538743 AAAA
1 AAAA
23538747 GTAAAATTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
37 10 0.26
39 6 0.15
40 5 0.13
42 13 0.33
43 5 0.13
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (41 bp):
AAAAATAATACTATAATAAAATAATTAATAATATATAATAT
Found at i:23538722 original size:54 final size:52
Alignment explanation
Indices: 23538647--23538804 Score: 135
Period size: 54 Copynumber: 2.9 Consensus size: 52
23538637 TAAGAGATGT
* *
23538647 AAAATAATAATT-TAAGAAAAATAATATATAATAAGTAATAATAATATATAATTA
1 AAAATAATACTTATAA-TAAAATAATATATAATAA-TAATAATAA-ATATAATTA
* *
23538701 AAAATAATACTTATAATAAAATAATTTTATAATATATAAT-ATAAAAGTAAAATTA
1 AAAATAATACTTATAATAAAATAA-TATATAATA-ATAATAAT-AAA-TATAATTA
* **
23538756 GAAATAA-ACGAATAATAAAATATATATATGGAATAAT-ATAATAAATATA
1 AAAATAATACTTATAATAAAATA-ATATAT--AATAATAATAATAAATATA
23538805 GGACTAAATT
Statistics
Matches: 86, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
53 3 0.03
54 43 0.50
55 35 0.41
56 5 0.06
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (52 bp):
AAAATAATACTTATAATAAAATAATATATAATAATAATAATAAATATAATTA
Found at i:23538732 original size:16 final size:17
Alignment explanation
Indices: 23538646--23538734 Score: 60
Period size: 17 Copynumber: 5.1 Consensus size: 17
23538636 CTAAGAGATG
*
23538646 TAAAATAATAATT-TAA
1 TAAAATAATACTTATAA
*
23538662 GAAAAATAATA--TATAA
1 -TAAAATAATACTTATAA
*
23538678 TAAGTAATAATAATATATAA
1 TAA--AATAATACT-TATAA
23538698 TTAAAAATAATACTTATAA
1 -T-AAAATAATACTTATAA
*
23538717 TAAAATAAT-TTTATAA
1 TAAAATAATACTTATAA
23538733 TA
1 TA
23538735 TATAATATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
15 3 0.05
16 11 0.18
17 24 0.40
18 1 0.02
19 5 0.08
20 13 0.22
21 1 0.02
22 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (17 bp):
TAAAATAATACTTATAA
Found at i:23538791 original size:21 final size:21
Alignment explanation
Indices: 23538765--23538804 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23538755 AGAAATAAAC
*
23538765 GAATAATAAAATATATATATG
1 GAATAATAAAATAAATATATG
*
23538786 GAATAATATAATAAATATA
1 GAATAATAAAATAAATATA
23538805 GGACTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
GAATAATAAAATAAATATATG
Found at i:23540470 original size:83 final size:83
Alignment explanation
Indices: 23540219--23540463 Score: 382
Period size: 83 Copynumber: 3.0 Consensus size: 83
23540209 TTCTATTTGT
* * * * *
23540219 AAGGATGTCAAATCATCTTGAGTCTGTCTGAAAACATTTGAGAGTCATATCTGCAAGGTCCTCAA
1 AAGGATGTCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
*
23540284 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
23540302 AAGGATGTCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATCTGCAATGTCCTCGA
1 AAGGATGTCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
*
23540367 TTTCTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * **
23540385 AAGGATGTCAAACCATCTTGAGTCTGTTTGAGAACATCTGAGAGTCAAATCTGTTATGTCCTCGA
1 AAGGATGTCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
23540450 TTTGTTCCTTGTAA
66 TTTGTTCCTTGTAA
23540464 ATACAAGAAT
Statistics
Matches: 148, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 148 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (83 bp):
AAGGATGTCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:23540623 original size:119 final size:119
Alignment explanation
Indices: 23540411--23540855 Score: 701
Period size: 119 Copynumber: 3.7 Consensus size: 119
23540401 CTTGAGTCTG
* ** *
23540411 TTTGAGAACATCTGAGAGTCAAATCTGTTATGTCCTCGATTTGTTCCTTGTAAATACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * * * *
23540476 CAAAACATCATGGATCTACTTCAATATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATA
*
23540530 TTTGAGAACGTTTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
23540595 CAAATCATCTTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATA
* ** * *
23540649 TTTGAGAATGTCTGAGAGTCAAATCTGTTATGTCTTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * * *
23540714 CAAATCATCTTGGCTCTGTTTCAGTATAATCATCTGAAGGTTAGACCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATA
* *
23540768 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAGACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
23540833 CAAATCATCTTGGATCTGCTTCA
66 CAAATCATCTTGGATCTGCTTCA
23540856 ACATAAATGT
Statistics
Matches: 299, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
119 299 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATA
Found at i:23552758 original size:19 final size:19
Alignment explanation
Indices: 23552734--23552773 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
23552724 TATAACCTTG
*
23552734 AATGCATATGATATG-ATGT
1 AATGCAAATG-TATGAATGT
23552753 AATGCAAATGTATGAATGT
1 AATGCAAATGTATGAATGT
23552772 AA
1 AA
23552774 CAAAGGCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (19 bp):
AATGCAAATGTATGAATGT
Found at i:23554154 original size:43 final size:43
Alignment explanation
Indices: 23554105--23554190 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
23554095 GAAGCAATTG
*
23554105 TGCACAACCAACAAACCTGCCTGCGCCGGCTTTCCTACATGCA
1 TGCACAACCAACAAACCTGCCTGCGCCAGCTTTCCTACATGCA
23554148 TGCACAACCAACAAACCTGCCTGCGCCAGCTTTCCTACATGCA
1 TGCACAACCAACAAACCTGCCTGCGCCAGCTTTCCTACATGCA
23554191 CCTAAGGACC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.27, C:0.40, G:0.15, T:0.19
Consensus pattern (43 bp):
TGCACAACCAACAAACCTGCCTGCGCCAGCTTTCCTACATGCA
Found at i:23556170 original size:16 final size:17
Alignment explanation
Indices: 23556139--23556172 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
23556129 ATACAAAAAT
*
23556139 GAATACTACGATATAAA
1 GAATAATACGATATAAA
23556156 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
23556172 G
1 G
23556173 TAAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:23556879 original size:22 final size:22
Alignment explanation
Indices: 23556748--23556923 Score: 73
Period size: 23 Copynumber: 8.0 Consensus size: 22
23556738 TATGAAAATG
* *
23556748 AAATATAATAAAGATTATATAATA
1 AAATATAAT-AATA-TATATAAGA
*
23556772 AAATATAAT-ATGAACATATAAGA
1 AAATATAATAAT--ATATATAAGA
* * *
23556795 AAA-AAAATAATAGATATAATA
1 AAATATAATAATATATATAAGA
* *
23556816 TGAAGTAACAAT-ATATATATAAG-
1 --AAAT-ATAATAATATATATAAGA
* * *
23556839 TAAT-TCATAAATATAATATATGA
1 AAATATAAT-AATAT-ATATAAGA
23556862 AAATATAATAATATATATAAGA
1 AAATATAATAATATATATAAGA
* * *
23556884 AATGTAAAATAATA-ATTTAAGA
1 AA-ATATAATAATATATATAAGA
23556906 AAA-ATAAT-ATATA-ATAAG
1 AAATATAATAATATATATAAG
23556924 TAATAATAAT
Statistics
Matches: 114, Mismatches: 24, Indels: 33
0.67 0.14 0.19
Matches are distributed among these distances:
19 9 0.08
20 5 0.04
21 14 0.12
22 29 0.25
23 31 0.27
24 22 0.19
25 4 0.04
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (22 bp):
AAATATAATAATATATATAAGA
Found at i:23556899 original size:44 final size:42
Alignment explanation
Indices: 23556825--23556923 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 42
23556815 ATGAAGTAAC
* *
23556825 AATATATATATAAGTAATTCATAAATATAATATATGAAAATAT
1 AATATATATATAAGAAATTCATAAATATAATATAAGAAAA-AT
*
23556868 AATAATATATATAAGAAATGT-A-AAATAATAATTTAAGAAAAAT
1 AAT-ATATATATAAGAAAT-TCATAAAT-ATAATATAAGAAAAAT
23556911 AATATATA-ATAAG
1 AATATATATATAAG
23556924 TAATAATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
41 5 0.10
42 5 0.10
43 12 0.24
44 27 0.54
45 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (42 bp):
AATATATATATAAGAAATTCATAAATATAATATAAGAAAAAT
Found at i:23556928 original size:17 final size:17
Alignment explanation
Indices: 23556890--23556961 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
23556880 AAGAAATGTA
*
23556890 AAATAATAAT-T-TAAG
1 AAATAATAATATATAAT
23556905 AAA-AATAATATATAAT
1 AAATAATAATATATAAT
*
23556921 AAGTAATAATAATATAA-
1 AAATAATAAT-ATATAAT
*
23556938 AAATAATACT-TATAAT
1 AAATAATAATATATAAT
23556954 AAAATAAT
1 -AAATAAT
23556962 TTTATAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
14 6 0.13
15 9 0.19
16 5 0.11
17 21 0.45
18 6 0.13
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (17 bp):
AAATAATAATATATAAT
Found at i:23556968 original size:16 final size:17
Alignment explanation
Indices: 23556888--23556970 Score: 54
Period size: 17 Copynumber: 5.1 Consensus size: 17
23556878 ATAAGAAATG
*
23556888 TAAAATAATAATT-TAA
1 TAAAATAATACTTATAA
*
23556904 GAAAAATAATA--TATAA
1 -TAAAATAATACTTATAA
*
23556920 TAAGTAATAATA-ATAT-A
1 TAA--AATAATACTTATAA
23556937 -AAAATAATACTTATAA
1 TAAAATAATACTTATAA
*
23556953 TAAAATAAT-TTTATAA
1 TAAAATAATACTTATAA
23556969 TA
1 TA
23556971 TATAATATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
14 7 0.13
15 6 0.11
16 14 0.25
17 25 0.45
18 3 0.05
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAAATAATACTTATAA
Found at i:23556968 original size:31 final size:30
Alignment explanation
Indices: 23556894--23556979 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 30
23556884 AATGTAAAAT
* *
23556894 AATAATTTAAGAAAAATAATATATAATAAG
1 AATAATTTTATAAAAATAATATATAATAAG
**
23556924 TAATAATAATATAAAAATAATACTTATAATAA-
1 -AATAATTTTATAAAAATAATA--TATAATAAG
*
23556956 AATAATTTTATAATATATAATATA
1 AATAATTTTATAA-AAATAATATA
23556980 AAAGTAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
30 2 0.04
31 28 0.62
32 7 0.16
33 8 0.18
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.36
Consensus pattern (30 bp):
AATAATTTTATAAAAATAATATATAATAAG
Found at i:23564131 original size:27 final size:27
Alignment explanation
Indices: 23564094--23564162 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
23564084 AGTATCGCAA
* *
23564094 CAAAGCTACCAGTATTAGTATATGTGG
1 CAAAGCCACCAGTATCAGTATATGTGG
*
23564121 CAAAGCCACCAGTAACAGTATATGTGG
1 CAAAGCCACCAGTATCAGTATATGTGG
* *
23564148 CGAAGCCACCGGTAT
1 CAAAGCCACCAGTAT
23564163 AATACACTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (27 bp):
CAAAGCCACCAGTATCAGTATATGTGG
Found at i:23566856 original size:25 final size:25
Alignment explanation
Indices: 23566828--23566897 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
23566818 CTCTTTTAAT
*
23566828 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
23566853 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
23566878 AATTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
23566898 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:23567132 original size:27 final size:27
Alignment explanation
Indices: 23567100--23567314 Score: 218
Period size: 27 Copynumber: 8.0 Consensus size: 27
23567090 GGGGCAAAAT
* *
23567100 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
23567127 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
23567154 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
23567181 GGTAATTTTGCCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
23567208 AGTAATTCTACCCTAC-AGGATTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
* * * *
23567235 AGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
23567262 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
23567289 GGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTTTACCCTACAAGGGTATTT
23567315 TGATATTTTA
Statistics
Matches: 160, Mismatches: 24, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
26 5 0.03
27 149 0.93
28 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:23567244 original size:81 final size:81
Alignment explanation
Indices: 23567100--23567314 Score: 270
Period size: 81 Copynumber: 2.7 Consensus size: 81
23567090 GGGGCAAAAT
* * * * * * *
23567100 GGTAATTTTACCCCACAAGGGTATCTC-GATAATTCTACCCTACAGGGGTATTTCGGTATTTCTA
1 GGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACAGGAGTATTTCAGTAATTCTA
*
23567164 CCCTACAAGGGTATTTC
65 CCCTACAAGGGTATTGC
* * * *
23567181 GGTAATTTTGCCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGATTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTAC
*
23567246 CCTACAGGGGTATTGC
66 CCTACAAGGGTATTGC
* * *
23567262 GGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGAGTATTT
23567315 TGATATTTTA
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
81 114 0.99
82 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTAC
CCTACAAGGGTATTGC
Found at i:23567395 original size:54 final size:55
Alignment explanation
Indices: 23567304--23567571 Score: 205
Period size: 54 Copynumber: 5.0 Consensus size: 55
23567294 TTCTACCCTA
* * *
23567304 CAGGGGTATTTT-G-ATATTTTACAAATC-GAGAGTATTTTGATAATTTCACAAGC
1 CAGGGGTATTTTAGTA-ATTTTACAAATCAGAGGGTATTTTGATAATTTTACAAAC
* *
23567357 CAGGGGTATTTTAGTAATTTTACAAACCAG-GGGTATTTT-AGTAGTTTTACAAAC
1 CAGGGGTATTTTAGTAATTTTACAAATCAGAGGGTATTTTGA-TAATTTTACAAAC
* * * ** * **
23567411 CAAGGCTATTTTGGTAATTTTACTGAT-AGAGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTAGTAATTTTACAAATCAGAGGGTATTTTGATAATTTTACAAAC
* ** * * **
23567465 CAAGGGTATTTTAGTAATTTTGTAATTCAG-GGGTACTTTGATAATTTTACAAGT
1 CAGGGGTATTTTAGTAATTTTACAAATCAGAGGGTATTTTGATAATTTTACAAAC
* ** * *
23567519 C-GAGGGTATTTCAGTAATTTTGTAAA-CTGAGGGTA-TTTCAGTAATTTTACAAA
1 CAG-GGGTATTTTAGTAATTTTACAAATCAGAGGGTATTTTGA-TAATTTTACAAA
23567572 TCGAGGATAT
Statistics
Matches: 171, Mismatches: 34, Indels: 19
0.76 0.15 0.08
Matches are distributed among these distances:
53 21 0.12
54 146 0.85
55 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (55 bp):
CAGGGGTATTTTAGTAATTTTACAAATCAGAGGGTATTTTGATAATTTTACAAAC
Found at i:23567446 original size:81 final size:81
Alignment explanation
Indices: 23567304--23567594 Score: 270
Period size: 81 Copynumber: 3.6 Consensus size: 81
23567294 TTCTACCCTA
* * * *
23567304 CAGGGGTATTTT-G-ATATTTTACAAATCGA-GAGTATTTTGATAATTTCACAAGCCAG-GGGTA
1 CAGGGGTATTTTAGTA-ATTTTACAAATCAAGGA-TATTTTGGTAATTTTACAAG-TAGAGGGTA
**
23567365 TTTTAGTAATTTTACAAAC
63 TTTTAGTAATTTTGTAAAC
* * * *
23567384 CAGGGGTATTTTAGTAGTTTTACAAACCAAGGCTATTTTGGTAATTTTAC-TGATAGAGGGTATT
1 CAGGGGTATTTTAGTAATTTTACAAATCAAGGATATTTTGGTAATTTTACAAG-TAGAGGGTATT
*
23567448 TTGGTAATTTTGTAAAC
65 TTAGTAATTTTGTAAAC
* ** * * * * * *
23567465 CAAGGGTATTTTAGTAATTTTGTAATTCAGGGGTACTTTGATAATTTTACAAGTCGAGGGTATTT
1 CAGGGGTATTTTAGTAATTTTACAAATCAAGGATATTTTGGTAATTTTACAAGTAGAGGGTATTT
*
23567530 CAGTAATTTTGTAAA-
66 TAGTAATTTTGTAAAC
* * * *
23567545 CTGAGGGTATTTCAGTAATTTTACAAATCGAGGATATTTGGGTAATTTTA
1 CAG-GGGTATTTTAGTAATTTTACAAATCAAGGATATTTTGGTAATTTTA
23567595 TAAACCGGGG
Statistics
Matches: 167, Mismatches: 38, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
80 16 0.10
81 148 0.89
82 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
CAGGGGTATTTTAGTAATTTTACAAATCAAGGATATTTTGGTAATTTTACAAGTAGAGGGTATTT
TAGTAATTTTGTAAAC
Found at i:23567525 original size:27 final size:27
Alignment explanation
Indices: 23567307--23567645 Score: 180
Period size: 27 Copynumber: 12.6 Consensus size: 27
23567297 TACCCTACAG
23567307 GGGTATTTTGA-T-ATTTTACAAATCGA
1 GGGTA-TTTGAGTAATTTTACAAATCGA
* * * *
23567333 GAGTATTTTGA-TAATTTCAC-AAGCCA
1 GGGTA-TTTGAGTAATTTTACAAATCGA
* *
23567359 GGGGTATTTTAGTAATTTTACAAA-CCA
1 -GGGTATTTGAGTAATTTTACAAATCGA
* * * *
23567386 GGGGTATTTTAGTAGTTTTACAAACCAA
1 -GGGTATTTGAGTAATTTTACAAATCGA
* ** *
23567414 GGCTATTTTG-GTAATTTTACTGATAGA
1 GGGTA-TTTGAGTAATTTTACAAATCGA
** * *
23567441 GGGTATTTTG-GTAATTTTGTAAACCAA
1 GGGTA-TTTGAGTAATTTTACAAATCGA
* ** *
23567468 GGGTATTTTAGTAATTTTGTAATTC-A
1 GGGTATTTGAGTAATTTTACAAATCGA
*
23567494 GGGGTACTTTGA-TAATTTTACAAGTCGA
1 -GGGTA-TTTGAGTAATTTTACAAATCGA
* **
23567522 GGGTATTTCAGTAATTTTGTAAA-CTGA
1 GGGTATTTGAGTAATTTTACAAATC-GA
*
23567549 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTGAGTAATTTTACAAATCGA
* * * * *
23567576 GGATATTTGGGTAATTTTATAAACCGG
1 GGGTATTTGAGTAATTTTACAAATCGA
* * *
23567603 GGGTACTTTG-GTGATTCTACAACT-GA
1 GGGTA-TTTGAGTAATTTTACAAATCGA
*
23567629 GGGTATTTCAGTAATTT
1 GGGTATTTGAGTAATTT
23567646 GGTAAACTAA
Statistics
Matches: 244, Mismatches: 54, Indels: 30
0.74 0.16 0.09
Matches are distributed among these distances:
25 3 0.01
26 39 0.16
27 185 0.76
28 17 0.07
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGTATTTGAGTAATTTTACAAATCGA
Found at i:23567607 original size:81 final size:81
Alignment explanation
Indices: 23567319--23567645 Score: 252
Period size: 81 Copynumber: 4.0 Consensus size: 81
23567309 GTATTTTGAT
* * **
23567319 ATTTTACAAATCGA-GAGTATTTTGATAATTTCACAAGCC-AGGGGTATTTTAGTAATTTTACAA
1 ATTTTACAAATCGAGGA-TATTTTGATAATTTTACAAACCGA-GGGTATTTTAGTAATTTTGTAA
* *
23567382 AC-CAGGGGTATTTTAGTA
64 ACTGA-GGGTATTTCAGTA
* * * * * ** ** *
23567400 GTTTTACAAACCAAGGCTATTTTGGTAATTTTACTGATAGAGGGTATTTTGGTAATTTTGTAAAC
1 ATTTTACAAATCGAGGATATTTTGATAATTTTACAAACCGAGGGTATTTTAGTAATTTTGTAAAC
** *
23567465 CAAGGGTATTTTAGTA
66 TGAGGGTATTTCAGTA
** * * * ** *
23567481 ATTTTGTAATTC-AGGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTCAGTAATTTTGTAAA
1 ATTTTACAAATCGA-GGATATTTTGATAATTTTACAAACCGAGGGTATTTTAGTAATTTTGTAAA
23567545 CTGAGGGTATTTCAGTA
65 CTGAGGGTATTTCAGTA
* * * * * * * *
23567562 ATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACCGGGGGTACTTTGGTGA--TTCTACAA
1 ATTTTACAAATCGAGGATATTTTGATAATTTTACAAACCGAGGGTATTTTAGTAATTTTGTA-AA
23567625 CTGAGGGTATTTCAGTA
65 CTGAGGGTATTTCAGTA
23567642 ATTT
1 ATTT
23567646 GGTAAACTAA
Statistics
Matches: 192, Mismatches: 48, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
79 4 0.02
80 24 0.12
81 160 0.83
82 4 0.02
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
ATTTTACAAATCGAGGATATTTTGATAATTTTACAAACCGAGGGTATTTTAGTAATTTTGTAAAC
TGAGGGTATTTCAGTA
Found at i:23572958 original size:45 final size:45
Alignment explanation
Indices: 23572902--23573000 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
23572892 GTTCCGAAGA
* * *
23572902 GTTTTTTAGTGATAAAAGTGATTATTCCACTGTGGTTGAGTAATG
1 GTTTCTTAGTGATAAAAGTGATTATCCCACTATGGTTGAGTAATG
*
23572947 GTTTCTTAGTGATACAAGTGATTATCCCACTATGGTTGAGTAATG
1 GTTTCTTAGTGATAAAAGTGATTATCCCACTATGGTTGAGTAATG
23572992 GTTATCTTA
1 GTT-TCTTA
23573001 TTTATGTAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 44 0.90
46 5 0.10
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (45 bp):
GTTTCTTAGTGATAAAAGTGATTATCCCACTATGGTTGAGTAATG
Found at i:23577923 original size:24 final size:23
Alignment explanation
Indices: 23577882--23577935 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
23577872 CCTTATAATA
23577882 GGAAGCTCACACAAAG-CCATTTCG
1 GGAAGCTCACACAAAGCCCA--TCG
*
23577906 GGAAGCTCATA-AAGAGCCCATCG
1 GGAAGCTCACACAA-AGCCCATCG
23577929 GGAAGCT
1 GGAAGCT
23577936 TATCCGGGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 12 0.44
24 12 0.44
25 3 0.11
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (23 bp):
GGAAGCTCACACAAAGCCCATCG
Found at i:23578006 original size:24 final size:24
Alignment explanation
Indices: 23577979--23578047 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
23577969 CCATTATCGA
* * * *
23577979 GAAGTTAAGAAAGAACCTTATTTG
1 GAAGTTCACAAAGAACCATATTAG
23578003 GAAGTTCACAAAGAACCATATTAG
1 GAAGTTCACAAAGAACCATATTAG
23578027 GAAGTTCACAAAGAACCATAT
1 GAAGTTCACAAAGAACCATAT
23578048 CAGAAAGGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.23
Consensus pattern (24 bp):
GAAGTTCACAAAGAACCATATTAG
Found at i:23582501 original size:23 final size:24
Alignment explanation
Indices: 23582475--23582526 Score: 81
Period size: 22 Copynumber: 2.2 Consensus size: 24
23582465 CTCATAACAG
23582475 CCATAATTGGGAAGTT-CAAAGAA
1 CCATAATTGGGAAGTTACAAAGAA
23582498 CCAT-ATTGGGAAGTTCACAAAGAA
1 CCATAATTGGGAAGTT-ACAAAGAA
23582522 CCATA
1 CCATA
23582527 TCGGAAAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 11 0.42
23 4 0.15
24 11 0.42
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.21
Consensus pattern (24 bp):
CCATAATTGGGAAGTTACAAAGAA
Found at i:23582523 original size:24 final size:22
Alignment explanation
Indices: 23582475--23582563 Score: 79
Period size: 24 Copynumber: 3.8 Consensus size: 22
23582465 CTCATAACAG
23582475 CCATAATTGGGAAGTTCAAAGAA
1 CCAT-ATTGGGAAGTTCAAAGAA
23582498 CCATATTGGGAAGTTCACAAAGAA
1 CCATATTGGGAAGTT--CAAAGAA
* * * *
23582522 CCATATCGGAAAGCTTCAGATAA
1 CCATATTGGGAAG-TTCAAAGAA
**
23582545 CCAGTAACGGGAAGTTCAA
1 CCA-TATTGGGAAGTTCAA
23582564 GCGAGCACTA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
22 11 0.20
23 16 0.29
24 26 0.47
25 2 0.04
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.20
Consensus pattern (22 bp):
CCATATTGGGAAGTTCAAAGAA
Found at i:23587700 original size:24 final size:24
Alignment explanation
Indices: 23587668--23587717 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
23587658 GTCAGATTAC
23587668 AAGGATAAGTGAAATAGAAGTGGT
1 AAGGATAAGTGAAATAGAAGTGGT
23587692 AAGGATAAGTGAAATAGAAGTGGT
1 AAGGATAAGTGAAATAGAAGTGGT
23587716 AA
1 AA
23587718 TACGAAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.20
Consensus pattern (24 bp):
AAGGATAAGTGAAATAGAAGTGGT
Found at i:23597327 original size:50 final size:49
Alignment explanation
Indices: 23597259--23597462 Score: 162
Period size: 53 Copynumber: 4.0 Consensus size: 49
23597249 GGCACTAAAG
* * *
23597259 AAGACCATATCGTTTAAGATAGTAACTGGTGGGTTATGGCATCATATGGA
1 AAGACCATATCATGTAAGACA-TAACTGGTGGGTTATGGCATCATATGGA
* * *
23597309 AAGATCATATCATGTAAGACCATAATTGGTGAGTTATGGCATCATATGGAAAA
1 AAGACCATATCATGTAAGA-CATAACTGGTGGGTTATGGCATCATATGG---A
* *
23597362 AAGACCATAT--TGCATAAGACCGTAACTGGTGGGCTATGGCATCATATGGA
1 AAGACCATATCATG--TAAGA-CATAACTGGTGGGTTATGGCATCATATGGA
* * * *
23597412 AAGAATATCATATCAT-TAAAGATCACAACTAGTAGGTTATGGCATCATATG
1 AAG---ACCATATCATGT-AAGA-CATAACTGGTGGGTTATGGCATCATATG
23597463 AAAAAAATTT
Statistics
Matches: 124, Mismatches: 18, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
50 45 0.36
51 3 0.02
52 1 0.01
53 74 0.60
55 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (49 bp):
AAGACCATATCATGTAAGACATAACTGGTGGGTTATGGCATCATATGGA
Found at i:23597392 original size:53 final size:52
Alignment explanation
Indices: 23597280--23597469 Score: 181
Period size: 53 Copynumber: 3.7 Consensus size: 52
23597270 GTTTAAGATA
*
23597280 GTAACTGGTGGGTTATGGCATCATATGG---AAAGATCATATCATGTAAGACC
1 GTAACTGGTGGGTTATGGCATCATATGGAAAAAAGACCATATCA-GTAAGACC
* * *
23597330 ATAATTGGTGAGTTATGGCATCATATGGAAAAAAGACCATATTGCA-TAAGACC
1 GTAACTGGTGGGTTATGGCATCATATGGAAAAAAGACCATA-T-CAGTAAGACC
* * * * * *
23597383 GTAACTGGTGGGCTATGGCATCATATGGAAAGAATATCATATCATTAAAGATC
1 GTAACTGGTGGGTTATGGCATCATATGGAAAAAAGACCATATCAGT-AAGACC
** * * *
23597436 ACAACTAGTAGGTTATGGCATCATATGAAAAAAA
1 GTAACTGGTGGGTTATGGCATCATATGGAAAAAA
23597470 TTTAAGGAAG
Statistics
Matches: 114, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
50 25 0.22
51 2 0.02
52 2 0.02
53 82 0.72
54 1 0.01
55 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (52 bp):
GTAACTGGTGGGTTATGGCATCATATGGAAAAAAGACCATATCAGTAAGACC
Found at i:23600596 original size:44 final size:42
Alignment explanation
Indices: 23600533--23600693 Score: 152
Period size: 42 Copynumber: 3.8 Consensus size: 42
23600523 GATATGTGAT
* *
23600533 TTCGTGTAAGACCACGTCTGGGATGTTGGCATCGATTTGAGA
1 TTCGTGTAAGACCATGTCTGGGAAGTTGGCATCGATTTGAGA
23600575 TTTACGTGTAAGACCATGTCTGGGACA-TTGGCATCGTATTTGAG-
1 -TT-CGTGTAAGACCATGTCTGGGA-AGTTGGCATCG-ATTTGAGA
* *
23600619 TTCGTGTAAGACCATGTCTGAGACAG-TGGCATCGATATT-TGA
1 TTCGTGTAAGACCATGTCTGGGA-AGTTGGCATCGAT-TTGAGA
* * *
23600661 TTACATGTAAGACCATAT-TTGGAACGTTGGCAT
1 TT-CGTGTAAGACCATGTCTGGGAA-GTTGGCAT
23600694 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
41 4 0.04
42 38 0.38
43 23 0.23
44 29 0.29
45 7 0.07
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (42 bp):
TTCGTGTAAGACCATGTCTGGGAAGTTGGCATCGATTTGAGA
Found at i:23600637 original size:42 final size:43
Alignment explanation
Indices: 23600535--23600676 Score: 182
Period size: 42 Copynumber: 3.3 Consensus size: 43
23600525 TATGTGATTT
* **
23600535 CGTGTAAGACCACGTCTGGGATGTTGGCATCG-ATTTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGAG--TTA
23600579 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGAGTT-
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGAGTTA
* *
23600621 CGTGTAAGACCATGTCTGAGACAGTGGCATCGATATTTGA-TTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGAGTTA
*
23600664 CATGTAAGACCAT
1 CGTGTAAGACCAT
23600677 ATTTGGAACG
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
42 32 0.36
43 21 0.24
44 29 0.33
45 7 0.08
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGAGTTA
Found at i:23600692 original size:43 final size:44
Alignment explanation
Indices: 23600522--23600693 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 44
23600512 CATAGGATTA
* * * * *
23600522 CGATATGTGA-TTTCGTGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATTTGAGTTACGTGTAAGACCATGTCTGGAACGTTGGCAT
* *
23600565 CG--ATTTGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATTTGAG--TTACGTGTAAGACCATGTCTGGAACGTTGGCAT
23600609 CG-TATTTGAGTT-CGTGTAAGACCATGTCT-GAGACAG-TGGCAT
1 CGATATTTGAGTTACGTGTAAGACCATGTCTGGA-AC-GTTGGCAT
* * *
23600651 CGATATTTGA-TTACATGTAAGACCATATTTGGAACGTTGGCAT
1 CGATATTTGAGTTACGTGTAAGACCATGTCTGGAACGTTGGCAT
23600694 TGTACGAGCT
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
41 6 0.06
42 30 0.28
43 33 0.30
44 33 0.30
45 7 0.06
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (44 bp):
CGATATTTGAGTTACGTGTAAGACCATGTCTGGAACGTTGGCAT
Found at i:23605367 original size:17 final size:19
Alignment explanation
Indices: 23605331--23605369 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
23605321 AATTGTTTGT
23605331 GAATTGGTATGAAATGTGA
1 GAATTGGTATGAAATGTGA
*
23605350 GAATTGG-ATTAAAT-TGA
1 GAATTGGTATGAAATGTGA
23605367 GAA
1 GAA
23605370 GTGGCGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 6 0.32
19 7 0.37
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (19 bp):
GAATTGGTATGAAATGTGA
Found at i:23610128 original size:14 final size:14
Alignment explanation
Indices: 23610100--23610143 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
23610090 TTATAGAACC
*
23610100 CATCAAG-CTGACT
1 CATCAAGCCGGACT
23610113 CATCAAGCCGGACT
1 CATCAAGCCGGACT
23610127 CATCAAGCCGGAC-
1 CATCAAGCCGGACT
23610140 CATC
1 CATC
23610144 TTGAAGCTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.16
Consensus pattern (14 bp):
CATCAAGCCGGACT
Found at i:23612245 original size:29 final size:27
Alignment explanation
Indices: 23612227--23612296 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
23612217 ATATTAAGTC
23612227 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
23612254 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
23612282 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
23612297 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:23612290 original size:28 final size:28
Alignment explanation
Indices: 23612227--23612324 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
23612217 ATATTAAGTC
*
23612227 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
23612254 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
23612282 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
23612311 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23612325 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23626131 original size:17 final size:18
Alignment explanation
Indices: 23626095--23626138 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23626085 ATTAATAAAG
* *
23626095 TAAATAAACATAAAAGAA
1 TAAAGAAACATAAAAAAA
23626113 TAAAGAAAC-TAAAAAAA
1 TAAAGAAACATAAAAAAA
23626130 TAAAAGAAA
1 T-AAAGAAA
23626139 GAAATGAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.14
Consensus pattern (18 bp):
TAAAGAAACATAAAAAAA
Found at i:23627328 original size:38 final size:39
Alignment explanation
Indices: 23627226--23627334 Score: 96
Period size: 38 Copynumber: 2.8 Consensus size: 39
23627216 GACCTCGAGT
* * **
23627226 CGATGAGACACTGGATGTCACTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--ACTTTACTTCGGATAGAGC
** * * *
23627267 CGATGAGGTACTGGGT-ACCACTTTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
*
23627304 CGATGAGACACTGGGTGTCAACTTTGCTTCG
1 CGATGAGACACTGGGTGTCAACTTTACTTCG
23627335 AACTATTTGA
Statistics
Matches: 53, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
37 14 0.26
38 25 0.47
40 1 0.02
41 13 0.25
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
Found at i:23633050 original size:37 final size:37
Alignment explanation
Indices: 23633005--23633082 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
23632995 AACTCAACTC
* *
23633005 TAAA-TAAGGCATTGTTTGATA-ACCCATTGAAAAAAT
1 TAAATTAAGGCACTATTTGATAGA-CCATTGAAAAAAT
*
23633041 TAAATTAAGGCCCTATTTGATAGACCATTGAAAAAAT
1 TAAATTAAGGCACTATTTGATAGACCATTGAAAAAAT
23633078 TAAAT
1 TAAAT
23633083 CAATTGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 4 0.11
37 32 0.86
38 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.31
Consensus pattern (37 bp):
TAAATTAAGGCACTATTTGATAGACCATTGAAAAAAT
Found at i:23637961 original size:24 final size:24
Alignment explanation
Indices: 23637889--23637969 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
23637879 TAGTGCATAG
*
23637889 ATGCGAACCCTATATGTTTTATAC
1 ATGCGAACCCTATATGTTTTATAT
* * *
23637913 ATGCGAACTCTACAAGTTTTA-AT
1 ATGCGAACCCTATATGTTTTATAT
* *
23637936 ATGCAAACCCTATATGTCTTATAT
1 ATGCGAACCCTATATGTTTTATAT
23637960 ATGCGAACCC
1 ATGCGAACCC
23637970 CCATGTTATA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
23 17 0.37
24 29 0.63
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.33
Consensus pattern (24 bp):
ATGCGAACCCTATATGTTTTATAT
Found at i:23641419 original size:20 final size:19
Alignment explanation
Indices: 23641363--23641419 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 19
23641353 AGTTTTTTTT
**
23641363 TAGTTTTTATCTTAGATAAA
1 TAGTTTTTAT-TTATTTAAA
23641383 TAGATTTTT-TTTAATTTAAA
1 TAG-TTTTTATTT-ATTTAAA
23641403 CTAGTTTTTATTTATTT
1 -TAGTTTTTATTTATTT
23641420 TTTTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
19 2 0.06
20 18 0.58
21 11 0.35
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.60
Consensus pattern (19 bp):
TAGTTTTTATTTATTTAAA
Found at i:23644405 original size:21 final size:21
Alignment explanation
Indices: 23644380--23644422 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
23644370 AAGCTGGGTT
**
23644380 TAAGAAAGGTAAGCTTAAGTC
1 TAAGAAAGACAAGCTTAAGTC
23644401 TAAGAAAGACAAGCTTAAGTC
1 TAAGAAAGACAAGCTTAAGTC
23644422 T
1 T
23644423 TTCGAGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (21 bp):
TAAGAAAGACAAGCTTAAGTC
Found at i:23645193 original size:129 final size:128
Alignment explanation
Indices: 23644962--23645200 Score: 320
Period size: 129 Copynumber: 1.9 Consensus size: 128
23644952 GCAGCAACGA
* * * *
23644962 AGCTTGTTGAGTCATCAGATGGGCTTCCACCCAAGGAAGAGGTGAGTTGTCATCGGATTTAAAAG
1 AGCTTGCTGAGTCATCAGATGGGCTTCCACCCAAGAAAGAGGTGAGTTGTCATCGAACTTAAAAG
23645027 AAAAAGTAGCGATGCAAACATTGAAGCTAGGACCAATGAAGCTCATTTTGAGGAAAGCGAAGG
66 AAAAAGTAGCGATGCAAACATTGAAGCTAGGACCAATGAAGCTCATTTTGAGGAAAGCGAAGG
* * * * *
23645090 AGCTTGCTGAGTTATCAGA-GAGGCTTTCATCTAAGAAAGAGGTGAGTTGTGCATCGAACTTAAG
1 AGCTTGCTGAGTCATCAGATG-GGCTTCCACCCAAGAAAGAGGTGAGTTGT-CATCGAACTTAAA
* * * *
23645154 GGGAAAAGTAGCGATGCAAA-ATTTGAAGCTAGGATCAATGAGGCTCA
64 AGAAAAAGTAGCGATGCAAACA-TTGAAGCTAGGACCAATGAAGCTCA
23645201 ATTCTGTTGA
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
127 1 0.01
128 43 0.45
129 51 0.54
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (128 bp):
AGCTTGCTGAGTCATCAGATGGGCTTCCACCCAAGAAAGAGGTGAGTTGTCATCGAACTTAAAAG
AAAAAGTAGCGATGCAAACATTGAAGCTAGGACCAATGAAGCTCATTTTGAGGAAAGCGAAGG
Found at i:23649138 original size:29 final size:28
Alignment explanation
Indices: 23649083--23649138 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
23649073 TTGGCTTATC
* *
23649083 ATTTTTGTCAAAACATTCAAGTCTTAAT
1 ATTTTTGTCAAAACATTCAAATATTAAT
* *
23649111 ATTTTTGTCTAAACCATTTAAATATTAA
1 ATTTTTGTC-AAAACATTCAAATATTAA
23649139 ATAAATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (28 bp):
ATTTTTGTCAAAACATTCAAATATTAAT
Found at i:23656196 original size:49 final size:49
Alignment explanation
Indices: 23656114--23656478 Score: 616
Period size: 49 Copynumber: 7.6 Consensus size: 49
23656104 TTAAACCCAT
*
23656114 ATGTGAAAGTG--TATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23656161 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23656210 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23656259 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23656308 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23656357 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
23656406 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
23656453 ATGTGAAAGTGCATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
23656479 TCCCGAAGGG
Statistics
Matches: 305, Mismatches: 9, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
47 60 0.20
48 1 0.00
49 244 0.80
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:23656653 original size:37 final size:37
Alignment explanation
Indices: 23656597--23656675 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
23656587 CTGAGCTCTA
* * *
23656597 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
23656634 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
23656671 AAGAC
1 AAGAC
23656676 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:23672172 original size:60 final size:58
Alignment explanation
Indices: 23672050--23672183 Score: 139
Period size: 60 Copynumber: 2.3 Consensus size: 58
23672040 TTCATATTAT
** * * *
23672050 AATAATTATATTAAAAATATTATTAAATTATATATTATTCTATTAAATTTTATTTAAT
1 AATAATTATATTAAAAATAAGATTAAATTATATATTATTCTATTAAATATAATTTAAC
* *
23672108 AATAATTATGTT-AAAATAAGATTAAATTATTTAATATTATTTTTATTAAA-ATAATTTAAC
1 AATAATTATATTAAAAATAAGATTAAATTA--T-ATATTA-TTCTATTAAATATAATTTAAC
23672168 AATAATCT-TATTAAAA
1 AATAAT-TATATTAAAA
23672184 TTTAAAAACA
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
57 15 0.24
58 11 0.18
59 1 0.02
60 22 0.35
61 13 0.21
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (58 bp):
AATAATTATATTAAAAATAAGATTAAATTATATATTATTCTATTAAATATAATTTAAC
Found at i:23675979 original size:42 final size:42
Alignment explanation
Indices: 23675933--23676014 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
23675923 TGAGTTTATA
** *
23675933 TTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATAGGTTTCCG
1 TTCAGCTCTCATGAGCTTCTGTTCAACCCTTATAGGTTTCCG
23675975 TTCAGCTCTCATGAGCTTCTGTTCAACCCTTATAGGTTTC
1 TTCAGCTCTCATGAGCTTCTGTTCAACCCTTATAGGTTTC
23676015 TATTTAGCAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.43
Consensus pattern (42 bp):
TTCAGCTCTCATGAGCTTCTGTTCAACCCTTATAGGTTTCCG
Found at i:23676015 original size:21 final size:21
Alignment explanation
Indices: 23675949--23676015 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
23675939 TCTTTTGAGC
*
23675949 TTCTGTTTAACCCTTATAGGT
1 TTCTGTTCAACCCTTATAGGT
* * * * *
23675970 TTCCGTTCAGCTCTCAT-GAGC
1 TTCTGTTCAACCCTTATAG-GT
23675991 TTCTGTTCAACCCTTATAGGT
1 TTCTGTTCAACCCTTATAGGT
23676012 TTCT
1 TTCT
23676016 ATTTAGCACT
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.43
Consensus pattern (21 bp):
TTCTGTTCAACCCTTATAGGT
Found at i:23676035 original size:42 final size:42
Alignment explanation
Indices: 23675944--23676039 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
23675934 TCAGCTCTTT
* * *
23675944 TGAGCTTCTGTTTAACCCTTATAGGTTTCCGTTCAGCTCTCA
1 TGAGCTTCTGTTCAACCCTTATAGGTTTCCATTCAGCACTCA
* * *
23675986 TGAGCTTCTGTTCAACCCTTATAGGTTTCTATTTAGCACTTA
1 TGAGCTTCTGTTCAACCCTTATAGGTTTCCATTCAGCACTCA
*
23676028 TGTGCTTCTGTT
1 TGAGCTTCTGTT
23676040 TTGCTTTCGG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.44
Consensus pattern (42 bp):
TGAGCTTCTGTTCAACCCTTATAGGTTTCCATTCAGCACTCA
Found at i:23676037 original size:84 final size:84
Alignment explanation
Indices: 23675885--23676040 Score: 188
Period size: 84 Copynumber: 1.9 Consensus size: 84
23675875 TTGTGTTTAC
* * * * * *
23675885 TTTCCATTTAGCTCTCACGAGCTTCTGTTTAACTCATGTGAGTTTATATTCAGCTCTTTTGAGCT
1 TTTCCATTCAGCTCTCACGAGCTTCTGTTCAACCCATATGAGTTTATATTCAGCACTTATGAGCT
23675950 TCTGTTTAACCCTTATAGG
66 TCTGTTTAACCCTTATAGG
* * * * * *
23675969 TTTCCGTTCAGCTCTCATGAGCTTCTGTTCAACCCTTAT-AGGTTTCTATTTAGCACTTATGTGC
1 TTTCCATTCAGCTCTCACGAGCTTCTGTTCAACCCATATGA-GTTTATATTCAGCACTTATGAGC
23676033 TTCTGTTT
65 TTCTGTTT
23676041 TGCTTTCGGG
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
83 1 0.02
84 58 0.98
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.45
Consensus pattern (84 bp):
TTTCCATTCAGCTCTCACGAGCTTCTGTTCAACCCATATGAGTTTATATTCAGCACTTATGAGCT
TCTGTTTAACCCTTATAGG
Found at i:23676834 original size:28 final size:28
Alignment explanation
Indices: 23676790--23676844 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
23676780 GCAGAGACAC
*
23676790 GGGCATGTGTCTTAGTCATGTGTCACAT
1 GGGCATGTGTCTCAGTCATGTGTCACAT
*
23676818 GGGCATGTGTCTCAGTCGTGTGTCACA
1 GGGCATGTGTCTCAGTCATGTGTCACA
23676845 CGGCCTAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.16, C:0.20, G:0.31, T:0.33
Consensus pattern (28 bp):
GGGCATGTGTCTCAGTCATGTGTCACAT
Found at i:23679525 original size:19 final size:19
Alignment explanation
Indices: 23679501--23679540 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
23679491 ACCATATATT
23679501 TAAGTTAATCCAAATAACA
1 TAAGTTAATCCAAATAACA
23679520 TAAGTTAATCCAAATAACA
1 TAAGTTAATCCAAATAACA
23679539 TA
1 TA
23679541 CTTATTCCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.28
Consensus pattern (19 bp):
TAAGTTAATCCAAATAACA
Found at i:23681146 original size:76 final size:76
Alignment explanation
Indices: 23681020--23681170 Score: 284
Period size: 76 Copynumber: 2.0 Consensus size: 76
23681010 GAATTTACAG
*
23681020 GAAAGAATAACCACATAGCACGCACAAAACATAAGTTAAACAAAAGCTTTGGAAAAGTCATTGAA
1 GAAAGAATAACCACATAGCACACACAAAACATAAGTTAAACAAAAGCTTTGGAAAAGTCATTGAA
23681085 CTGTGAATTGA
66 CTGTGAATTGA
*
23681096 GAAAGAATAACCACATAGCACACAGAAAACATAAGTTAAACAAAAGCTTTGGAAAAGTCATTGAA
1 GAAAGAATAACCACATAGCACACACAAAACATAAGTTAAACAAAAGCTTTGGAAAAGTCATTGAA
23681161 CTGTGAATTG
66 CTGTGAATTG
23681171 GGTTTGCCAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (76 bp):
GAAAGAATAACCACATAGCACACACAAAACATAAGTTAAACAAAAGCTTTGGAAAAGTCATTGAA
CTGTGAATTGA
Found at i:23684883 original size:15 final size:15
Alignment explanation
Indices: 23684859--23684889 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23684849 CCAAGATGTG
23684859 TACAACATTCATTTT
1 TACAACATTCATTTT
*
23684874 TACAATATTCATTTT
1 TACAACATTCATTTT
23684889 T
1 T
23684890 GTTTTAATTT
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (15 bp):
TACAACATTCATTTT
Found at i:23686299 original size:19 final size:19
Alignment explanation
Indices: 23686271--23686313 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
23686261 TTGAAATTAC
*
23686271 AAAAATTAAAAA-TGGTTT
1 AAAAATTAAAAATTAGTTT
23686289 AAAATATTAAAAATTAGTTT
1 AAAA-ATTAAAAATTAGTTT
23686309 AAAAA
1 AAAAA
23686314 ATACAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 9 0.41
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (19 bp):
AAAAATTAAAAATTAGTTT
Found at i:23686321 original size:19 final size:20
Alignment explanation
Indices: 23686285--23686322 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
23686275 ATTAAAAATG
*
23686285 GTTTAAAATATTAAAAATTA
1 GTTTAAAATAATAAAAATTA
*
23686305 GTTTAAAA-AATACAAATT
1 GTTTAAAATAATAAAAATT
23686323 TCGTATATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (20 bp):
GTTTAAAATAATAAAAATTA
Found at i:23688632 original size:21 final size:21
Alignment explanation
Indices: 23688606--23688660 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
23688596 TATTTAAATT
23688606 TCAAAATAACTTAAAAATGTA
1 TCAAAATAACTTAAAAATGTA
*
23688627 TCAAAATAACTTCAAAATGTA
1 TCAAAATAACTTAAAAATGTA
*
23688648 -CAATATAA-TTAAA
1 TCAAAATAACTTAAA
23688661 TAATATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 20 0.65
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (21 bp):
TCAAAATAACTTAAAAATGTA
Found at i:23688687 original size:14 final size:14
Alignment explanation
Indices: 23688649--23688691 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
23688639 CAAAATGTAC
23688649 AATATAATTAAA-T
1 AATATAATTAAATT
23688662 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
23688677 AA-ATAATTTAATT
1 AATATAATTAAATT
23688690 AA
1 AA
23688692 CTATTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:23691722 original size:15 final size:17
Alignment explanation
Indices: 23691694--23691725 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
23691684 TTGTATATAT
23691694 TATATTTATATTATGTA
1 TATATTTATATTATGTA
23691711 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
23691726 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:23703693 original size:77 final size:77
Alignment explanation
Indices: 23703566--23704489 Score: 1848
Period size: 77 Copynumber: 12.0 Consensus size: 77
23703556 TCAGTTCTTG
23703566 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
1 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
23703631 TATATATATATA
66 TATATATATATA
23703643 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
1 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
23703708 TATATATATATA
66 TATATATATATA
23703720 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
1 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
23703785 TATATATATATA
66 TATATATATATA
23703797 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
1 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
23703862 TATATATATATA
66 TATATATATATA
23703874 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
1 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
23703939 TATATATATATA
66 TATATATATATA
23703951 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
1 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
23704016 TATATATATATA
66 TATATATATATA
23704028 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
1 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
23704093 TATATATATATA
66 TATATATATATA
23704105 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
1 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
23704170 TATATATATATA
66 TATATATATATA
23704182 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
1 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
23704247 TATATATATATA
66 TATATATATATA
23704259 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
1 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
23704324 TATATATATATA
66 TATATATATATA
23704336 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
1 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
23704401 TATATATATATA
66 TATATATATATA
23704413 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
1 CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
23704478 TATATATATATA
66 TATATATATATA
23704490 TGTGTGTGTG
Statistics
Matches: 847, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 847 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (77 bp):
CTCATATTAATATGCCTTGGTACATAATGTGGCAATGACATGTGCTAGTACATGACCTTTAGGTA
TATATATATATA
Found at i:23707061 original size:65 final size:66
Alignment explanation
Indices: 23706957--23707103 Score: 208
Period size: 66 Copynumber: 2.2 Consensus size: 66
23706947 TATATTCACT
* *
23706957 ATTTATATATATATTACAAGTTTTTAATAAATAATAAATTA-TTTTTGAGTTTTTACACATTTAA
1 ATTTATATATATTTTACAAGTTTTTAATAAATAATAAATTATTTTTTGAGTTTTTAAACATTTAA
23707021 A
66 A
* * * *
23707022 ATTTATATATATTTTA-GATTTTATTAATAAATAATAAATTATTTTTTGATTTTTTAAACATTTG
1 ATTTATATATATTTTACAAGTTT-TTAATAAATAATAAATTATTTTTTGAGTTTTTAAACATTTA
23707086 AA
65 AA
*
23707088 ATCTATATATATTTTA
1 ATTTATATATATTTTA
23707104 AAAACTTTTA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
64 4 0.05
65 33 0.45
66 36 0.49
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (66 bp):
ATTTATATATATTTTACAAGTTTTTAATAAATAATAAATTATTTTTTGAGTTTTTAAACATTTAA
A
Found at i:23707126 original size:9 final size:9
Alignment explanation
Indices: 23707098--23707133 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
23707088 ATCTATATAT
23707098 ATTTTAAAA
1 ATTTTAAAA
23707107 ACTTTTAAAAA
1 A-TTTT-AAAA
23707118 ATTTTAAAA
1 ATTTTAAAA
23707127 ATTTTAA
1 ATTTTAA
23707134 TTTTTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 12 0.48
10 8 0.32
11 5 0.20
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:23708319 original size:40 final size:40
Alignment explanation
Indices: 23708264--23708423 Score: 311
Period size: 40 Copynumber: 4.0 Consensus size: 40
23708254 GAAATGACAC
*
23708264 AATTTTCAAACATTCCCATTTGCAAATACTGTCCCCATTT
1 AATTTTTAAACATTCCCATTTGCAAATACTGTCCCCATTT
23708304 AATTTTTAAACATTCCCATTTGCAAATACTGTCCCCATTT
1 AATTTTTAAACATTCCCATTTGCAAATACTGTCCCCATTT
23708344 AATTTTTAAACATTCCCATTTGCAAATACTGTCCCCATTT
1 AATTTTTAAACATTCCCATTTGCAAATACTGTCCCCATTT
23708384 AATTTTTAAACATTCCCATTTGCAAATACTGTCCCCATTT
1 AATTTTTAAACATTCCCATTTGCAAATACTGTCCCCATTT
23708424 CTTCATATTA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 119 1.00
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.39
Consensus pattern (40 bp):
AATTTTTAAACATTCCCATTTGCAAATACTGTCCCCATTT
Found at i:23714573 original size:40 final size:40
Alignment explanation
Indices: 23714479--23714623 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
23714469 TACTCGAATG
*
23714479 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
23714520 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
23714560 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
23714600 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
23714624 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:23725961 original size:19 final size:19
Alignment explanation
Indices: 23725926--23725964 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23725916 TATGTATTTC
23725926 TTATTCATTTTTATTTTAT
1 TTATTCATTTTTATTTTAT
*
23725945 TTATT-ATTCTTTGTTTTAT
1 TTATTCATT-TTTATTTTAT
23725964 T
1 T
23725965 ATTTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (19 bp):
TTATTCATTTTTATTTTAT
Found at i:23725966 original size:22 final size:21
Alignment explanation
Indices: 23725908--23725973 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
23725898 CCCTTCACTT
23725908 ATTTTCTTTATGTATTTCTTATTC
1 ATTTT-TTTAT-TATTT-TTATTC
23725932 ATTTTTATT-TTATTTATTATTC
1 ATTTTT-TTATTATTT-TTATTC
23725954 -TTTGTTTTATTATTTTTATT
1 ATTT-TTTTATTATTTTTATT
23725974 TCCCTTTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 10 0.26
22 19 0.50
23 2 0.05
24 7 0.18
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (21 bp):
ATTTTTTTATTATTTTTATTC
Found at i:23726169 original size:3 final size:3
Alignment explanation
Indices: 23726161--23726220 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
23726151 TTGTGTTTTC
*
23726161 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23726209 TAT TAT TAT TAT
1 TAT TAT TAT TAT
23726221 ATTTTTAATG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:23728413 original size:29 final size:28
Alignment explanation
Indices: 23728372--23728429 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
23728362 TTCCCTTTTC
23728372 ATTAAGAACAAAGCTAAACAGTGGATGA
1 ATTAAGAACAAAGCTAAACAGTGGATGA
* *
23728400 ATTAAGGAACAAAGCTAAATAGTGGTTGA
1 ATTAA-GAACAAAGCTAAACAGTGGATGA
23728429 A
1 A
23728430 CTCGTTACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.48, C:0.09, G:0.22, T:0.21
Consensus pattern (28 bp):
ATTAAGAACAAAGCTAAACAGTGGATGA
Found at i:23731079 original size:94 final size:94
Alignment explanation
Indices: 23730916--23731099 Score: 314
Period size: 94 Copynumber: 2.0 Consensus size: 94
23730906 ACGACATGCC
* * *
23730916 CGTGTCTAACACCCGTGGCCAAACCTGTCAAATTAACACGGGCGTGGGGTTTTCATACACGGGCG
1 CGTGTCTAACACCCGTGGCCAAACCTGTCAAATTAACACGAGCGTGGAGTTTTCATACACAGGCG
*
23730981 TAGGAGAAGTGAACAACGCCAGCCACGGG
66 TAGGAGAAGCGAACAACGCCAGCCACGGG
* *
23731010 CGTGTTTAACACCCGTGGCCAAACCTGTCAAATTAACACGAGCGTGGAGTTTTCATACACAGGCT
1 CGTGTCTAACACCCGTGGCCAAACCTGTCAAATTAACACGAGCGTGGAGTTTTCATACACAGGCG
23731075 TAGGAGAAGCGAACAACGCCAGCCA
66 TAGGAGAAGCGAACAACGCCAGCCA
23731100 GGTCGTGCGA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 84 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.18
Consensus pattern (94 bp):
CGTGTCTAACACCCGTGGCCAAACCTGTCAAATTAACACGAGCGTGGAGTTTTCATACACAGGCG
TAGGAGAAGCGAACAACGCCAGCCACGGG
Found at i:23745185 original size:14 final size:14
Alignment explanation
Indices: 23745166--23745193 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23745156 AATGAGGTTA
23745166 GGAGATAAGTTTTT
1 GGAGATAAGTTTTT
23745180 GGAGATAAGTTTTT
1 GGAGATAAGTTTTT
23745194 CGAGTAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
GGAGATAAGTTTTT
Found at i:23746721 original size:11 final size:11
Alignment explanation
Indices: 23746705--23746745 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
23746695 CTCTTTTAAC
23746705 CATTTAAAATT
1 CATTTAAAATT
23746716 CATTTAAAATT
1 CATTTAAAATT
23746727 CATTTAAAATT
1 CATTTAAAATT
*
23746738 CACTTAAA
1 CATTTAAA
23746746 TTAAATTTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (11 bp):
CATTTAAAATT
Found at i:23748167 original size:14 final size:14
Alignment explanation
Indices: 23748168--23748206 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
23748158 ATAAAATTTA
*
23748168 AAAATTT-AAAACT
1 AAAATTTAAAAAAT
*
23748181 ATAATTTAAAAAAT
1 AAAATTTAAAAAAT
23748195 AAAATTTAAAAA
1 AAAATTTAAAAA
23748207 TTTAAAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATTTAAAAAAT
Found at i:23748172 original size:13 final size:13
Alignment explanation
Indices: 23748168--23748207 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
23748158 ATAAAATTTA
*
23748168 AAAATTTAAAACT
1 AAAATTTAAAAAT
*
23748181 ATAATTTAAAAAAT
1 AAAATTT-AAAAAT
23748195 AAAATTTAAAAAT
1 AAAATTTAAAAAT
23748208 TTAAAACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATTTAAAAAT
Found at i:23748173 original size:8 final size:8
Alignment explanation
Indices: 23748122--23748242 Score: 67
Period size: 8 Copynumber: 15.5 Consensus size: 8
23748112 AGAAATAATT
23748122 ATTTAAAA
1 ATTTAAAA
*
23748130 TATTAAAAA
1 -ATTTAAAA
*
23748139 ATTAAAGATA
1 ATTTAA-A-A
23748149 ATTTAAAA
1 ATTTAAAA
*
23748157 A-AT-AAA
1 ATTTAAAA
23748163 ATTTAAAA
1 ATTTAAAA
23748171 ATTT-AAA
1 ATTTAAAA
* *
23748178 A-CT-ATA
1 ATTTAAAA
23748184 ATTTAAAA
1 ATTTAAAA
*
23748192 A-AT-AAA
1 ATTTAAAA
23748198 ATTTAAAA
1 ATTTAAAA
23748206 ATTTAAAA
1 ATTTAAAA
* * *
23748214 CTATATAA
1 ATTTAAAA
23748222 ATTTCAAAA
1 ATTT-AAAA
*
23748231 ATCTAAAA
1 ATTTAAAA
23748239 ATTT
1 ATTT
23748243 TGGAAAACAA
Statistics
Matches: 85, Mismatches: 18, Indels: 19
0.70 0.15 0.16
Matches are distributed among these distances:
6 12 0.14
7 9 0.11
8 43 0.51
9 15 0.18
10 6 0.07
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (8 bp):
ATTTAAAA
Found at i:23748192 original size:35 final size:35
Alignment explanation
Indices: 23748125--23748218 Score: 147
Period size: 35 Copynumber: 2.7 Consensus size: 35
23748115 AATAATTATT
* *
23748125 TAAAATATTAAAAAATT-AAA-GATAATTTAAAAAA
1 TAAAAT-TTAAAAATTTAAAACTATAATTTAAAAAA
23748159 TAAAATTTAAAAATTTAAAACTATAATTTAAAAAA
1 TAAAATTTAAAAATTTAAAACTATAATTTAAAAAA
23748194 TAAAATTTAAAAATTTAAAACTATA
1 TAAAATTTAAAAATTTAAAACTATA
23748219 TAAATTTCAA
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
33 9 0.16
34 9 0.16
35 38 0.68
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (35 bp):
TAAAATTTAAAAATTTAAAACTATAATTTAAAAAA
Found at i:23748194 original size:22 final size:22
Alignment explanation
Indices: 23748148--23748192 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
23748138 AATTAAAGAT
23748148 AATTTAAAAAATAAAATTTAAA
1 AATTTAAAAAATAAAATTTAAA
* *
23748170 AATTT-AAAACTATAATTTAAA
1 AATTTAAAAAATAAAATTTAAA
23748191 AA
1 AA
23748193 ATAAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTTAAAAAATAAAATTTAAA
Found at i:23751910 original size:22 final size:21
Alignment explanation
Indices: 23751853--23751894 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23751843 ATTTTTCGAA
23751853 GAAATTGGTTTAAAAAAAGAT
1 GAAATTGGTTTAAAAAAAGAT
23751874 GAAATTGGTTTAAAAAAAGAT
1 GAAATTGGTTTAAAAAAAGAT
23751895 ACATTAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (21 bp):
GAAATTGGTTTAAAAAAAGAT
Found at i:23752729 original size:76 final size:76
Alignment explanation
Indices: 23752603--23752756 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 76
23752593 CCAAATAGAT
23752603 TAAAGATATCCTATGAGGGTAACACACTTATGACAAGGTTATTGGATGAACACTTATTAAGTAGC
1 TAAAGATATCCTATGAGGGTAACACACTTATGACAAGGTTATTGGATGAACACTTATTAAGTAGC
23752668 TTTCCTAATGG
66 TTTCCTAATGG
*
23752679 TAAAGATATCCTATGAGGGTAACATACTTATGACAAGGTTATTGGATGAACACTTATTAAGTAGC
1 TAAAGATATCCTATGAGGGTAACACACTTATGACAAGGTTATTGGATGAACACTTATTAAGTAGC
23752744 TTTCCTAATGG
66 TTTCCTAATGG
23752755 TA
1 TA
23752757 TGTAATAAGG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.32
Consensus pattern (76 bp):
TAAAGATATCCTATGAGGGTAACACACTTATGACAAGGTTATTGGATGAACACTTATTAAGTAGC
TTTCCTAATGG
Found at i:23771408 original size:58 final size:58
Alignment explanation
Indices: 23771314--23771429 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
23771304 CGGTGCCTCT
* *
23771314 GTTTGCACTTTGGTGCCTATGTTAGCATTTCGATGCTCTCTAGTGTAATTGGGCTAGC
1 GTTTGCACTTTGGTGCCTATGTTAGCATTTCAATGCTCTCTAGTATAATTGGGCTAGC
* * *
23771372 GTTTGCA-TTTCGGTGCCTATGTTAGCATTTTAATGCTCTCTAGTATGATTGGGTTAGC
1 GTTTGCACTTT-GGTGCCTATGTTAGCATTTCAATGCTCTCTAGTATAATTGGGCTAGC
23771430 TGAGTATCCA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
57 3 0.06
58 49 0.94
ACGTcount: A:0.16, C:0.17, G:0.25, T:0.41
Consensus pattern (58 bp):
GTTTGCACTTTGGTGCCTATGTTAGCATTTCAATGCTCTCTAGTATAATTGGGCTAGC
Found at i:23773057 original size:19 final size:19
Alignment explanation
Indices: 23773029--23773072 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
23773019 GCACTTAAAG
*
23773029 TGCATACTAGCGCACGAAA
1 TGCATACTAGCACACGAAA
* *
23773048 TGCATCCTAGCACACGAAG
1 TGCATACTAGCACACGAAA
23773067 TGCATA
1 TGCATA
23773073 TTGACCCACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.18
Consensus pattern (19 bp):
TGCATACTAGCACACGAAA
Found at i:23773121 original size:38 final size:38
Alignment explanation
Indices: 23773049--23773123 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
23773039 CGCACGAAAT
* *
23773049 GCATCCTAGCACACGAAGTGCATATTGACCCACAAAGC
1 GCATCCTAGCACACGAAGTGAATATTGACACACAAAGC
* *
23773087 GCATCCTGGCACACGAAGTGAATCTT-ATCACACAAAG
1 GCATCCTAGCACACGAAGTGAATATTGA-CACACAAAG
23773124 TGAATCTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.17
Consensus pattern (38 bp):
GCATCCTAGCACACGAAGTGAATATTGACACACAAAGC
Done.