Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 59 of 356
Found at i:19004052 original size:31 final size:31
Alignment explanation
Indices: 19003965--19004054 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 31
19003955 ATGATCGAAG
* * *
19003965 TGATAGAATTTGTAAATATAGAGAATTAAAT
1 TGATAGAATTTGTAAATATTGAGGATAAAAT
* *
19003996 TTATTA-AATTTTTTAAA-ATT-AGGATAAAAT
1 TGA-TAGAA-TTTGTAAATATTGAGGATAAAAT
*
19004026 TGATAGAATGTGTAAATATTGAGGATAAA
1 TGATAGAATTTGTAAATATTGAGGATAAA
19004055 TATGTTATTA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
29 8 0.17
30 15 0.33
31 14 0.30
32 9 0.20
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (31 bp):
TGATAGAATTTGTAAATATTGAGGATAAAAT
Found at i:19011803 original size:24 final size:24
Alignment explanation
Indices: 19011776--19011823 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
19011766 CTTTAGGAGT
19011776 ATGTTTATTTTCTGTAATTGCTAA
1 ATGTTTATTTTCTGTAATTGCTAA
19011800 ATGTTTATTTTCTGTAATTGCTAA
1 ATGTTTATTTTCTGTAATTGCTAA
19011824 CATTCTGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.54
Consensus pattern (24 bp):
ATGTTTATTTTCTGTAATTGCTAA
Found at i:19022564 original size:67 final size:68
Alignment explanation
Indices: 19022456--19022592 Score: 258
Period size: 67 Copynumber: 2.0 Consensus size: 68
19022446 CCATACCTCA
*
19022456 TAACAAAGAAGACACTTAATCTATCAACCACCACTTCTCTCTTTCAACTGATCTCTCTTA-GGAT
1 TAACAAAGAAGACACTTAATCTATCAACCACCACTTCTCTCTTTCAACTAATCTCTCTTAGGGAT
19022520 GTG
66 GTG
19022523 TAACAAAGAAGACACTTAATCTATCAACCACCACTTCTCTCTTTCAACTAATCTCTCTTAGGGAT
1 TAACAAAGAAGACACTTAATCTATCAACCACCACTTCTCTCTTTCAACTAATCTCTCTTAGGGAT
19022588 GTG
66 GTG
19022591 TA
1 TA
19022593 GTCGGTTAAC
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
67 59 0.87
68 9 0.13
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.31
Consensus pattern (68 bp):
TAACAAAGAAGACACTTAATCTATCAACCACCACTTCTCTCTTTCAACTAATCTCTCTTAGGGAT
GTG
Found at i:19022732 original size:9 final size:9
Alignment explanation
Indices: 19022715--19022762 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
19022705 ATTTGGTCGG
19022715 TTAACCGAA
1 TTAACCGAA
*
19022724 TTAATCGAA
1 TTAACCGAA
19022733 TTAACCGAA
1 TTAACCGAA
* *
19022742 TTACCCAAA
1 TTAACCGAA
*
19022751 TTAACAGAA
1 TTAACCGAA
19022760 TTA
1 TTA
19022763 CTTGTATAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (9 bp):
TTAACCGAA
Found at i:19023093 original size:18 final size:18
Alignment explanation
Indices: 19023072--19023107 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19023062 TTCAGTTAAC
19023072 CGATCGATTAACCAAATT
1 CGATCGATTAACCAAATT
* *
19023090 CGATCGGTTAACCGAATT
1 CGATCGATTAACCAAATT
19023108 TTTTCGGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (18 bp):
CGATCGATTAACCAAATT
Found at i:19025315 original size:19 final size:20
Alignment explanation
Indices: 19025293--19025330 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
19025283 ATAAAAAAAT
*
19025293 TAAAATATTTTTAA-AAGTA
1 TAAAATAATTTTAATAAGTA
*
19025312 TAAATTAATTTTAATAAGT
1 TAAAATAATTTTAATAAGT
19025331 GTAATTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAAATAATTTTAATAAGTA
Found at i:19026062 original size:31 final size:32
Alignment explanation
Indices: 19026021--19026086 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
19026011 TTTAAATTAA
*
19026021 TTAATTAGATA-AATATTATTTTATTAATATT
1 TTAATGAGATATAATATTATTTTATTAATATT
* *
19026052 TTAATGAGATATTTATTATTATTTTATTATTATT
1 TTAATGAGATA--TAATATTATTTTATTAATATT
19026086 T
1 T
19026087 ATTTAGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
34 19 0.66
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (32 bp):
TTAATGAGATATAATATTATTTTATTAATATT
Found at i:19028276 original size:46 final size:46
Alignment explanation
Indices: 19028224--19028451 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
19028214 GTTATCTGAA
*
19028224 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
19028270 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
19028316 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
19028362 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
19028408 A-GAAAGTGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAAA-TGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
19028452 TCGAAGATAA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 166 0.98
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:19035403 original size:24 final size:24
Alignment explanation
Indices: 19035346--19035397 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
19035336 TTTCTAGAAG
* * *
19035346 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
19035370 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
19035394 ATTT
1 ATTT
19035398 GACATTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:19035408 original size:24 final size:24
Alignment explanation
Indices: 19035363--19035408 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
19035353 ATTTATGAGT
*
19035363 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCATTGATTAGC
19035387 ATAATATATTT-GACATTGATTA
1 ATAATATATTTAG-CATTGATTA
19035409 AAATTAGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (24 bp):
ATAATATATTTAGCATTGATTAGC
Found at i:19036261 original size:42 final size:42
Alignment explanation
Indices: 19036210--19036495 Score: 425
Period size: 42 Copynumber: 6.8 Consensus size: 42
19036200 GTTTACAAAC
* * *
19036210 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGACGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
19036252 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
19036294 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
19036336 AAAAACGCCGCTAAAGAACATGTTCTTTAG-GGCG-TTTGTAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AA
* * * *
19036377 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
19036419 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-A
*
19036461 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
19036496 TTTTTTTTCT
Statistics
Matches: 223, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
40 3 0.01
41 33 0.15
42 184 0.83
43 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:19036409 original size:125 final size:125
Alignment explanation
Indices: 19036210--19036498 Score: 429
Period size: 125 Copynumber: 2.3 Consensus size: 125
19036200 GTTTACAAAC
* * * * * *
19036210 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGACGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGAAAAAAACGCCACTAAAGACCATGT
*
19036275 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AGAA
65 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG-A
*
19036336 AAAAACGCCGCTAAAGAACATGTTCTTTAG-GGCGTTTGTAAAAAAATGCCACTAAAGACCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTG-AAAAAAACGCCACTAAAGACCATGT
* *
19036400 TCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGG
65 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGA
* *
19036461 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTT
19036499 TTTTTCTAAT
Statistics
Matches: 148, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
124 3 0.02
125 108 0.73
126 37 0.25
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (125 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGAAAAAAACGCCACTAAAGACCATGTT
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGA
Found at i:19036551 original size:84 final size:81
Alignment explanation
Indices: 19036210--19036574 Score: 381
Period size: 84 Copynumber: 4.4 Consensus size: 81
19036200 GTTTACAAAC
* * * *
19036210 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGACGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
* **
19036275 TCTTTAGCGGCGCTTAGAA
66 TCTTTAG-GGC-ATT-TTA
19036294 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
*
19036359 TCTTTAGGGCGTTTGTAA
66 TCTTTAGGGCATTT-T-A
* * * *
19036377 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
**
19036442 TCTTTAGCGGC-GCTTA
66 TCTTTAG-GGCATTTTA
* ****** *
19036458 AGGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTCTAATCGCCGCTAAAGAAC
1 A---AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTTAGAAAAAAACGCCGCTAAAGAAC
*
19036523 ATGTTCTTTAGTGGCATTTTTT
62 ATGTTCTTTAG-GGCA-TTTTA
* * *
19036545 ACAAACGCCGCAAAAGAACATGTTCTTTAG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAG
19036575 TGGTGCTTTT
Statistics
Matches: 241, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
81 2 0.01
82 3 0.01
83 73 0.30
84 128 0.53
85 32 0.13
87 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (81 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
TCTTTAGGGCATTTTA
Found at i:19036575 original size:41 final size:43
Alignment explanation
Indices: 19036254--19036577 Score: 198
Period size: 42 Copynumber: 7.7 Consensus size: 43
19036244 GCTTAGAAAA
* * * *** **
19036254 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGATTTTTTACT
* * * *** **
19036296 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGATTTTTTACT
* * **
19036338 AAACGCCGCTAAAGAACATGTTCTTTAG-GGCG-TTTGTAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGATTTTTTACT
* * * * * *** **
19036379 AAATGCCACTAAAGACCATGTTCTTTAGCGGCG-CTTAGGAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGATTTTTTACT
* * ****
19036421 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGGGA--
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGATT-TTTTACT
* * * *
19036463 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTCT
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGATTTTTTACT
*
19036506 AATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTTAC-
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGATTTTTTACT
*
19036547 AAACGCCGCAAAAGAACATGTTCTTTAGTGG
1 AAACGCCGCTAAAGAACATGTTCTTTAGTGG
19036578 TGCTTTTATA
Statistics
Matches: 246, Mismatches: 31, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
41 64 0.26
42 149 0.61
43 30 0.12
44 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGTGGCGATTTTTTACT
Found at i:19036672 original size:14 final size:14
Alignment explanation
Indices: 19036649--19036682 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
19036639 GCCCTCCTGT
*
19036649 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
19036663 AGCAACATTTCAAA
1 AGCAACATTTCAAA
19036677 AGCAAC
1 AGCAAC
19036683 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:19036967 original size:21 final size:21
Alignment explanation
Indices: 19036899--19036969 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
19036889 TTTTGCTCTG
* *
19036899 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
19036920 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
19036941 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
19036962 CTCTGCTT
1 CTCTGCTT
19036970 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:19042467 original size:11 final size:9
Alignment explanation
Indices: 19042419--19042583 Score: 69
Period size: 7 Copynumber: 19.0 Consensus size: 9
19042409 AATTGCAATG
19042419 GTAAGTTAT
1 GTAAGTTAT
19042428 GTAAGTTAT
1 GTAAGTTAT
19042437 GTAAGTTAAAT
1 GTAAGTT--AT
19042448 GT-A-TTAT
1 GTAAGTTAT
19042455 GTAAGTTAAAT
1 GTAAGTT--AT
19042466 GTAAG-T-T
1 GTAAGTTAT
19042473 GTAAGTTAT
1 GTAAGTTAT
*
19042482 -TATGTATTAT
1 GTAAG--TTAT
19042492 GTAAG-T-T
1 GTAAGTTAT
19042499 GTAAGTTAAAT
1 GTAAGTT--AT
*
19042510 GT-A-TTGT
1 GTAAGTTAT
19042517 GTAAG-T-T
1 GTAAGTTAT
19042524 GTAAGTTAAAT
1 GTAAGTT--AT
19042535 GT-A-TTAT
1 GTAAGTTAT
19042542 GTAAG-T-T
1 GTAAGTTAT
19042549 GTAAGTTAT
1 GTAAGTTAT
*
19042558 -TATGTATTAT
1 GTAAG--TTAT
19042568 GTAAG-T-T
1 GTAAGTTAT
19042575 GTAAGTTAT
1 GTAAGTTAT
19042584 TATGTATTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 60
0.65 0.03 0.32
Matches are distributed among these distances:
7 41 0.34
8 18 0.15
9 27 0.22
10 12 0.10
11 23 0.19
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:19042494 original size:19 final size:19
Alignment explanation
Indices: 19042433--19042850 Score: 82
Period size: 18 Copynumber: 21.6 Consensus size: 19
19042423 GTTATGTAAG
*
19042433 TTATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
*
19042451 TTATGTAAGTTA-AATGTAA
1 TTATGTAAGTTATTATGT-A
*
19042470 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
19042488 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
*
19042513 TTGTGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* *
19042538 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
19042554 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
19042572 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
19042590 TTGTGTAAGTTGCAAGTTAAATGTA
1 TTATGTAAGTT---A-TT--ATGTA
* *
19042615 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
19042631 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
19042649 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
* * *
19042667 TTGTGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
19042683 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
19042701 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
19042719 TTGTGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* * *
19042744 TTATGTCAGTCA-AATGTA
1 TTATGTAAGTTATTATGTA
19042762 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* *
19042787 TTATGTAAGTT-GTAAGTTA
1 TTATGTAAGTTATTATG-TA
*
19042806 TTATGT-A-TTATGTAAGTA
1 TTATGTAAGTTAT-TATGTA
*
19042824 --ATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
19042840 TTATGTAAGTT
1 TTATGTAAGTT
19042851 GTAAGTTATT
Statistics
Matches: 301, Mismatches: 43, Indels: 112
0.66 0.09 0.25
Matches are distributed among these distances:
14 3 0.01
15 18 0.06
16 19 0.06
17 6 0.02
18 83 0.28
19 71 0.24
20 5 0.02
21 3 0.01
22 4 0.01
23 8 0.03
24 3 0.01
25 78 0.26
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (19 bp):
TTATGTAAGTTATTATGTA
Found at i:19042498 original size:26 final size:26
Alignment explanation
Indices: 19042464--19042869 Score: 579
Period size: 26 Copynumber: 16.1 Consensus size: 26
19042454 TGTAAGTTAA
19042464 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
19042490 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
19042515 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
19042540 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
19042566 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * *
19042592 GTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
19042617 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
19042643 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
19042669 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
19042695 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
19042721 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
19042746 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
19042764 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
19042789 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
19042815 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
19042842 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
19042868 AT
1 AT
19042870 TTAATAAAAT
Statistics
Matches: 345, Mismatches: 22, Indels: 26
0.88 0.06 0.07
Matches are distributed among these distances:
18 12 0.03
19 1 0.00
21 3 0.01
22 3 0.01
24 1 0.00
25 113 0.33
26 188 0.54
27 15 0.04
28 9 0.03
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:19042839 original size:53 final size:51
Alignment explanation
Indices: 19042464--19042869 Score: 571
Period size: 51 Copynumber: 8.0 Consensus size: 51
19042454 TGTAAGTTAA
* *
19042464 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
*
19042515 GTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * * *
19042566 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
*
19042617 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
* *
19042669 GTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * *
19042721 GTGTAAGTTGTAAGTTAAATGTATTATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
19042764 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
19042815 ATGTAAGTAATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGT--TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
19042868 AT
1 AT
19042870 TTAATAAAAT
Statistics
Matches: 324, Mismatches: 18, Indels: 24
0.89 0.05 0.07
Matches are distributed among these distances:
43 36 0.11
45 1 0.00
46 3 0.01
48 3 0.01
49 1 0.00
50 24 0.07
51 114 0.35
52 97 0.30
53 45 0.14
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (51 bp):
ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
Found at i:19042862 original size:19 final size:19
Alignment explanation
Indices: 19042639--19042865 Score: 100
Period size: 19 Copynumber: 12.5 Consensus size: 19
19042629 AGTTATTATG
19042639 TATTATGTAAGTTGTAAGT
1 TATTATGTAAGTTGTAAGT
19042658 TATTATGT-A-TTGT--GT
1 TATTATGTAAGTTGTAAGT
* * * *
19042673 AAGT-TGTAAGTTATTA-T
1 TATTATGTAAGTTGTAAGT
19042690 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
19042710 TATTATGT-A-TTGT--GT
1 TATTATGTAAGTTGTAAGT
* * *
19042725 AAGT-TGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
* * *
19042741 GTATTATGTCAG-T-CAAAT
1 -TATTATGTAAGTTGTAAGT
19042759 GTATTATGTAAGTTGTAAGTTAAAT
1 -TATTATGTAAGTTGTAAG-----T
19042784 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
*
19042804 TATTATGT-ATTATGTAAG-
1 TATTATGTAAGT-TGTAAGT
*
19042822 TA--ATGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
19042837 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
19042857 TATTATGTA
1 TATTATGTA
19042866 TTATTTAATA
Statistics
Matches: 159, Mismatches: 21, Indels: 56
0.67 0.09 0.24
Matches are distributed among these distances:
14 10 0.06
15 12 0.08
16 10 0.06
17 12 0.08
18 36 0.23
19 51 0.32
20 8 0.05
25 20 0.13
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.47
Consensus pattern (19 bp):
TATTATGTAAGTTGTAAGT
Found at i:19042989 original size:73 final size:73
Alignment explanation
Indices: 19042906--19043055 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 73
19042896 ACATTACTAA
19042906 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
19042971 TATTTTTT
66 TATTTTTT
19042979 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
19043044 TATTTTTT
66 TATTTTTT
19043052 TATA
1 TATA
19043056 TTTTATTTTA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (73 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTT
Found at i:19043049 original size:35 final size:35
Alignment explanation
Indices: 19042937--19043049 Score: 104
Period size: 35 Copynumber: 3.1 Consensus size: 35
19042927 ATAAAATAAC
19042937 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
* * **** *
19042972 ATTTT-TTTATAATTATTAATAATATTTAATAAAATA-AC
1 ATTTTATTT-TAA-TAGT--CAAT-TTTAATATTCCACAT
19043010 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
19043045 ATTTT
1 ATTTT
19043050 TTTATATTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
34 11 0.19
35 17 0.30
36 3 0.05
37 3 0.05
38 12 0.21
39 11 0.19
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (35 bp):
ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
Found at i:19043220 original size:13 final size:13
Alignment explanation
Indices: 19043202--19043272 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
19043192 ATTTATAATT
19043202 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
19043215 ATTTAAGTAACAT
1 ATTTAAGTAATAA
19043228 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
19043241 ATTTAAGTAACAT
1 ATTTAAGTAATAA
19043254 ATTTAAGTAATAA
1 ATTTAAGTAATAA
19043267 ATTTAA
1 ATTTAA
19043273 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:19043231 original size:26 final size:26
Alignment explanation
Indices: 19043201--19043272 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
19043191 TATTTATAAT
19043201 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
19043227 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
19043253 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
19043273 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:19043299 original size:17 final size:17
Alignment explanation
Indices: 19043277--19043575 Score: 161
Period size: 17 Copynumber: 16.6 Consensus size: 17
19043267 ATTTAAACAA
19043277 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
19043294 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
19043311 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
19043328 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
* * *
19043351 ATTTAAGTAATTAAT-A
1 ATTTTAGTAAGTAATGT
* *
19043367 AATTTA--AA-CAA---
1 ATTTTAGTAAGTAATGT
19043378 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
19043395 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
19043412 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
19043429 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
* *
19043452 ATTTTAG-AAATAAATTT
1 ATTTTAGTAAGT-AATGT
*
19043469 AAACAAATTTATGTAAGTAATGT
1 -----ATTTTA-GTAAGTAATGT
19043492 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
19043509 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
*
19043526 AAACAAATTTTAGTAAGTAATTT
1 ------ATTTTAGTAAGTAATGT
19043549 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
19043566 ATTTTAGTAA
1 ATTTTAGTAA
19043576 TAAATTTAAC
Statistics
Matches: 224, Mismatches: 20, Indels: 76
0.70 0.06 0.24
Matches are distributed among these distances:
11 5 0.02
13 4 0.02
14 4 0.02
16 10 0.04
17 137 0.61
18 5 0.02
22 5 0.02
23 48 0.21
24 6 0.03
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.44
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:19043323 original size:57 final size:57
Alignment explanation
Indices: 19043244--19043584 Score: 375
Period size: 57 Copynumber: 6.5 Consensus size: 57
19043234 GTAATAAATT
** *
19043244 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
19043301 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTA--TT--
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
* * *
19043354 TAAGTAAT-TA----A-T-A-AATTTAAACA-AATTTT-AGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAA-ACAAATTTTAGTAAGTAATGTATTTTAG
19043402 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
* *
19043459 -AAATAA---A-TTTA--AACAAATTT-----A----T-GTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
*
19043499 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
19043556 TAAGTAATGTATTTTAGTAATAAATTTAA
1 TAAGTAATGTATTTTAGTAATAAATTTAA
19043585 CATTCAATCG
Statistics
Matches: 238, Mismatches: 14, Indels: 64
0.75 0.04 0.20
Matches are distributed among these distances:
40 18 0.08
41 6 0.03
44 14 0.06
45 16 0.07
46 4 0.02
47 9 0.04
48 9 0.04
49 2 0.01
50 8 0.03
52 7 0.03
53 10 0.04
54 1 0.00
55 4 0.02
56 17 0.07
57 113 0.47
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (57 bp):
TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
Found at i:19043338 original size:40 final size:40
Alignment explanation
Indices: 19043294--19043404 Score: 177
Period size: 44 Copynumber: 2.7 Consensus size: 40
19043284 TAAGTAATGT
19043294 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
19043334 ATTTTAGTAAGTAATGTATTTAAGTAATTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTT---T-AGTAATAAATTTAAACAA
19043378 ATTTTAGTAAGTAATGTATTTTAGTAA
1 ATTTTAGTAAGTAATGTATTTTAGTAA
19043405 GTAATGTATT
Statistics
Matches: 65, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
40 25 0.38
41 1 0.02
43 1 0.02
44 38 0.58
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:19043380 original size:101 final size:100
Alignment explanation
Indices: 19043261--19043563 Score: 533
Period size: 101 Copynumber: 3.0 Consensus size: 100
19043251 CATATTTAAG
19043261 TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
1 TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
*
19043326 TTAAACAAATTTTAGTAAGTAATGTATTTAAGTAA
66 TTAAACAAATTTTAGTAAGTAATGTATTTTAGTAA
19043361 TTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAA
1 -TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAA
19043426 TTTAAACAAATTTTAGTAAGTAATGTATTTTAG--A
65 TTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAA
19043460 -AATAAATTTAAACAAA-TTTATGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAA
1 TAATAAATTTAAACAAATTTTA-GTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAA
*
19043523 TTTAAACAAATTTTAGTAAGTAATTTATTTTAGTAA
65 TTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAA
19043559 GTAAT
1 -TAAT
19043564 GTATTTTAGT
Statistics
Matches: 195, Mismatches: 2, Indels: 10
0.94 0.01 0.05
Matches are distributed among these distances:
96 4 0.02
97 90 0.46
99 2 0.01
101 99 0.51
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (100 bp):
TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
TTAAACAAATTTTAGTAAGTAATGTATTTTAGTAA
Found at i:19043442 original size:40 final size:40
Alignment explanation
Indices: 19043395--19043501 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
19043385 TAAGTAATGT
19043395 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
19043435 ATTTTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
19043475 A-TTTATGTAAGTAATGTATTTTAGTAA
1 ATTTTA-GTAAGTAATGTATTTTAGTAA
19043502 GTAATGTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 4 0.06
40 60 0.94
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:19043555 original size:97 final size:97
Alignment explanation
Indices: 19043244--19043552 Score: 521
Period size: 97 Copynumber: 3.1 Consensus size: 97
19043234 GTAATAAATT
** *
19043244 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAAT
1 TAAGTAATGTATTTAAGAAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAAT
19043309 GTATTTTAGTAATAAATTTAAACAAATTTTAG
66 GTATTTTAGTAATAAATTTAAACAAATTTTAG
19043341 TAAGTAATGTATTTAAGTAATTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAG
1 TAAGTAATGTATTTAAG--A--AATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAG
19043406 TAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
62 TAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
*
19043442 TAAGTAATGTATTTTAGAAATAAATTTAAACAAA-TTTATGTAAGTAATGTATTTTAGTAAGTAA
1 TAAGTAATGTATTTAAGAAATAAATTTAAACAAATTTTA-GTAAGTAATGTATTTTAGTAAGTAA
19043506 TGTATTTTAGTAATAAATTTAAACAAATTTTAG
65 TGTATTTTAGTAATAAATTTAAACAAATTTTAG
*
19043539 TAAGTAATTTATTT
1 TAAGTAATGTATTT
19043553 TAGTAAGTAA
Statistics
Matches: 202, Mismatches: 5, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
96 4 0.02
97 102 0.50
99 1 0.00
101 95 0.47
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (97 bp):
TAAGTAATGTATTTAAGAAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAAT
GTATTTTAGTAATAAATTTAAACAAATTTTAG
Found at i:19044933 original size:11 final size:11
Alignment explanation
Indices: 19044917--19044956 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
19044907 GATGATAATA
19044917 CATTAGTTACC
1 CATTAGTTACC
19044928 CATTAGTTACC
1 CATTAGTTACC
*
19044939 CACTAGTTACC
1 CATTAGTTACC
19044950 CA-TAGTT
1 CATTAGTT
19044957 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:19046400 original size:14 final size:14
Alignment explanation
Indices: 19046381--19046410 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19046371 CACGAACAGC
19046381 AAGATGATTAACTA
1 AAGATGATTAACTA
19046395 AAGATGATTAACTA
1 AAGATGATTAACTA
19046409 AA
1 AA
19046411 AACCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AAGATGATTAACTA
Found at i:19046639 original size:36 final size:36
Alignment explanation
Indices: 19046598--19046712 Score: 116
Period size: 36 Copynumber: 3.2 Consensus size: 36
19046588 AAAAACAAAT
19046598 TATTTCAGACTCAAAAATTATTTCAAATCCAAAGCA
1 TATTTCAGACTCAAAAATTATTTCAAATCCAAAGCA
* * *
19046634 TATTTCAGAACAT-AACAACA-TA-ATCAAA-ACAAA--T
1 TATTTCAG-AC-TCAA-AA-ATTATTTCAAATCCAAAGCA
*
19046668 TATTTCAGACTCAGAAATTATTTCAAATCCAAAGCA
1 TATTTCAGACTCAAAAATTATTTCAAATCCAAAGCA
19046704 TATTTCAGA
1 TATTTCAGA
19046713 ACATAACAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
31 1 0.02
32 5 0.08
33 8 0.13
34 12 0.19
36 21 0.34
37 9 0.15
38 5 0.08
39 1 0.02
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (36 bp):
TATTTCAGACTCAAAAATTATTTCAAATCCAAAGCA
Found at i:19046695 original size:70 final size:71
Alignment explanation
Indices: 19046546--19046745 Score: 359
Period size: 70 Copynumber: 2.8 Consensus size: 71
19046536 CCAGATCCAG
*
19046546 ATTTCAGAA-CCAAAGCATAATTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTC
1 ATTTCA-AATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTC
19046610 AAAAATT
65 AAAAATT
19046617 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATC-AAAACAAATTATTTCAGACTCA
1 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
*
19046681 GAAATT
66 AAAATT
19046687 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCA
1 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCA
19046746 AATCCACTCA
Statistics
Matches: 125, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
70 71 0.57
71 54 0.43
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.26
Consensus pattern (71 bp):
ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
AAAATT
Found at i:19047080 original size:22 final size:22
Alignment explanation
Indices: 19047052--19047098 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
19047042 GTGGCTGTAA
*
19047052 TAACAGAAACGCCTTACCTATT
1 TAACAGAAACGCCTTACATATT
19047074 TAACAGAAACGCCTTACATATT
1 TAACAGAAACGCCTTACATATT
19047096 TAA
1 TAA
19047099 TCGGAATAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (22 bp):
TAACAGAAACGCCTTACATATT
Found at i:19048259 original size:14 final size:14
Alignment explanation
Indices: 19048240--19048310 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
19048230 ACCCCAGACT
19048240 CCTAAACCTTAAAC
1 CCTAAACCTTAAAC
*
19048254 CCTAAACACCCTAATAC
1 CCT-AA-ACCTTAA-AC
19048271 CCT-AACCTTAAA-
1 CCTAAACCTTAAAC
* * *
19048283 CCTACATCGTAAAC
1 CCTAAACCTTAAAC
*
19048297 CCTAAACTTTAAAC
1 CCTAAACCTTAAAC
19048311 TTTACACTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
12 3 0.07
13 7 0.16
14 19 0.44
15 3 0.07
16 6 0.14
17 5 0.12
ACGTcount: A:0.41, C:0.35, G:0.01, T:0.23
Consensus pattern (14 bp):
CCTAAACCTTAAAC
Found at i:19048895 original size:208 final size:209
Alignment explanation
Indices: 19048652--19049185 Score: 728
Period size: 227 Copynumber: 2.5 Consensus size: 209
19048642 TTTATCCAAG
19048652 CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
19048717 CAAAATTATGCGTTTTGGTTAAGATATTTTGCT-GCTATTAATATTCTTTAGCGGCGGTTTACCG
66 CAAAATTATGCGTTTTGGTTAAGATATTTTGCTCGCTATTAATATTCTTTAGCGGCGGTTTACCG
19048781 TAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTTTTGTTAAGATATTTTGCGG
131 TAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTTTTGTTAAGATATTTTGCGG
19048846 CGCTAGCTACAAAT
196 CGCTAGCTACAAAT
19048860 CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
19048925 CAAAATTATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTATTAATATTC
66 CAAAATTATGCGTTTTGGTTAAGATATTTT-----G---CT----------CGCTATTAATATTC
*
19048990 TTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACGCTGCGTTTT
113 TTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTTT
*
19049055 TGTTAAGATATTTTGTGGCGCTAGCTACAAAT
178 TGTTAAGATATTTTGCGGCGCTAGCTACAAAT
* * * * * * * *
19049087 CGCCGCTAATACTATTCTTTAGCGGCGTTTGACCATATGCGCCACTAGTTCTAGTATAAATCAAG
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCA-C-TAAGCGCCACTAATTCTACTATACATCGAG
* ** * * * *
19049152 ACCAAAACGATGTGTTTCGCTTAAGATAGTTTGC
64 GCCAAAATTATGCGTTTTGGTTAAGATATTTTGC
19049186 GGCGCTTCCA
Statistics
Matches: 288, Mismatches: 17, Indels: 29
0.86 0.05 0.09
Matches are distributed among these distances:
208 95 0.33
213 1 0.00
216 2 0.01
221 1 0.00
224 1 0.00
227 137 0.48
228 1 0.00
229 50 0.17
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (209 bp):
CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
CAAAATTATGCGTTTTGGTTAAGATATTTTGCTCGCTATTAATATTCTTTAGCGGCGGTTTACCG
TAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTTTTGTTAAGATATTTTGCGG
CGCTAGCTACAAAT
Found at i:19049075 original size:114 final size:112
Alignment explanation
Indices: 19048750--19049416 Score: 605
Period size: 113 Copynumber: 5.9 Consensus size: 112
19048740 ATATTTTGCT
* * *
19048750 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTACTATTCTTTAACGGC-GTTTACCGTAAGCGCCACTAATTTTATATACATCAAGA-CAA
* * *
19048815 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCT-ACAAATCGCC
64 AACACTGCGTTTTGGTTAAGATATTTTGCGGCGCT-TCTCACAAAGCGCC
* * * * *
19048864 GCTAATACTATGCTTTAACGGCGTTT-CAC-TAAGCGCCACTAATTCTACTATACATCGAGGCCA
1 GCTATTACTATTCTTTAACGGCGTTTAC-CGTAAGCGCCACTAATTTTA-TATACATC-AAGACA
*
19048927 AAATTA-TGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
63 AAA-CACTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
* * *
19048977 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTACTATTCTTTAACGGC-GTTTACCGTAAGCGCCACTAATTTTATATACATCAAGA-CAA
* * * * *
19049042 AACGCTGCGTTTTTGTTAAGATATTTTGTGGCGCTAGCT-ACAAATCGCC
64 AACACTGCGTTTTGGTTAAGATATTTTGCGGCGCT-TCTCACAAAGCGCC
* * * * * * *
19049091 GCTAATACTATTCTTTAGCGGCGTTTGACCATATGCGCCACTAGTTCTAGTATAAATCAAGACCA
1 GCTATTACTATTCTTTAACGGCGTTT-ACCGTAAGCGCCACTAATTTTA-TATACATCAAGA-CA
* * * * * *
19049156 AAACGA-TGTGTTTCGCTTAAGATAGTTTGCGGCGCTTC-CATAAAGCGTC
63 AAAC-ACTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
* * * * * * * * *
19049205 GCTATTACTGTACTTTAACGGCGTTTTCCTATAAACGCCACTAATTCTAAGATACCTCAAGACCA
1 GCTATTACTATTCTTTAACGGCGTTTACC-GTAAGCGCCACTAATT-TTATATACATCAAGACAA
* * * *
19049270 AACTCTGCGTTTTGGTTAAGCTATTTTGCGGCGTTTC-CAGAAAGCGCC
64 AACACTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
* * * * * *
19049318 GCTATTACTGTCCTTTAATGGCGTTT-CGCGTAAACGCCACTACTTTTAAGATACATCAAGACGA
1 GCTATTACTATTCTTTAACGGCGTTTAC-CGTAAGCGCCACTAATTTT-ATATACATCAAGAC-A
* * *
19049382 AAACACAGCGTTTTGGTTAAGAGATTTCGCGGCGC
63 AAACACTGCGTTTTGGTTAAGATATTTTGCGGCGC
19049417 ATTGTGGTAA
Statistics
Matches: 450, Mismatches: 82, Indels: 43
0.78 0.14 0.07
Matches are distributed among these distances:
111 1 0.00
112 48 0.11
113 175 0.39
114 165 0.37
115 61 0.14
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (112 bp):
GCTATTACTATTCTTTAACGGCGTTTACCGTAAGCGCCACTAATTTTATATACATCAAGACAAAA
CACTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
Found at i:19049321 original size:227 final size:227
Alignment explanation
Indices: 19048750--19049302 Score: 680
Period size: 227 Copynumber: 2.4 Consensus size: 227
19048740 ATATTTTGCT
* * * * * * *
19048750 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTAATATACTTTAACGGCGGTTTACCATAAACGCCACTAATTTAAGATACATCAAGATCAA
19048815 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
66 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
* * * ** * *
19048880 AACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTT
131 AACGGCGTTTCACTAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGCTT
*
19048945 AAGATATTTTGCGGCGCTTCTCACAAAGCGCC
196 AAGATAGTTTGCGGCGCTTCTCACAAAGCGCC
* * * * * * *
19048977 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTAATATACTTTAACGGCGGTTTACCATAAACGCCACTAATTTAAGATACATCAAGATCAA
* * *
19049042 AACGCTGCGTTTTTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCCGCTAATACTATTCTTT
66 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
* * * * * *
19049107 AGCGGCGTTTGACCATATGCGCCACTAGTTCTAGTATAAATCAAGACCAAAACGATGTGTTTCGC
131 AACGGCGTTTCA-C-TAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGC
* *
19049172 TTAAGATAGTTTGCGGCGCTTC-CATAAAGCGTC
194 TTAAGATAGTTTGCGGCGCTTCTCACAAAGCGCC
* * * *
19049205 GCTATTACTGTACTTTAACGGC-GTTTTCCTATAAACGCCACTAATTCTAAGATACCTCAAGA-C
1 GCTATTAATATACTTTAACGGCGGTTTACC-ATAAACGCCACTAATT-TAAGATACATCAAGATC
* * * *
19049268 CAAACTCTGCGTTTTGGTTAAGCTATTTTGCGGCG
64 AAAACACTGCGTTTTTGTTAAGATATTTTGCGGCG
19049303 TTTCCAGAAA
Statistics
Matches: 287, Mismatches: 35, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
227 143 0.50
228 73 0.25
229 71 0.25
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (227 bp):
GCTATTAATATACTTTAACGGCGGTTTACCATAAACGCCACTAATTTAAGATACATCAAGATCAA
AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
AACGGCGTTTCACTAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGCTT
AAGATAGTTTGCGGCGCTTCTCACAAAGCGCC
Found at i:19057548 original size:156 final size:155
Alignment explanation
Indices: 19057075--19057771 Score: 962
Period size: 156 Copynumber: 4.5 Consensus size: 155
19057065 AAATTAAAAC
* * * *
19057075 GGAGAGCGTCAAACTTAAGTTATATCTGTAATCTGACGGTCGCGTGTTCGATCCACGCTCACCGC
1 GGAGAGCGTCAGACTGAAGATATATCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCGC
* * * * *
19057140 ATCA-TTT-T-TTTTTCCTTCATTTTCTTGGCCGGGACAGGTTAGCTGCGTTTTT-TGCTCTTTC
66 ATTATTTTATATTTTTCCTTCATTTTCTGGGCTGGAACAGGTTAGCTTC-TTTTTCTGCTCTTT-
* *
19057201 AAAATTCAAGCGGGGATAGCTCAGTTG
129 TAAAGTCAAGCGGGGATAGCTCAGTTG
*
19057228 GGAGAGCGTCAGACTGAAGATATATCTGTTATCTGAAGGTCGCGTG-TCGATCCACGCTCACCGC
1 GGAGAGCGTCAGACTGAAGATATATCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCGC
* * * * **
19057292 AAT-TTTTA-ATTTTTCCTTCATATTT-TGGGCTGCAACAGGTTAGCTACTTTTTTTGCAATTTT
66 ATTATTTTATATTTTTCCTTCAT-TTTCTGGGCTGGAACAGGTTAGCTTCTTTTTCTGCTCTTTT
**
19057354 AAAACACAAGCGGGGATAGCTCAGTTG
130 -AAAGTCAAGCGGGGATAGCTCAGTTG
*
19057381 GGAGAGCGTCAGACTGAAGATATACCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCGC
1 GGAGAGCGTCAGACTGAAGATATATCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCGC
* *
19057446 ATTATTTTATATTTTTCCTTCATTTTCTGGGGTGGAACAGGTTAGTTTCTTTTTCTGCTCTTTCT
66 ATTATTTTATATTTTTCCTTCATTTTCTGGGCTGGAACAGGTTAGCTTCTTTTTCTGCTCTTT-T
* *
19057511 AAAGGCAAGTGGGGATAGCTCAGTTG
130 AAAGTCAAGCGGGGATAGCTCAGTTG
* * *
19057537 GGAGAGCGTCAGACTGAAGATGTATCTGTAATCTGAAAGTCGCGTGTTCGATCCACGTTCACCGC
1 GGAGAGCGTCAGACTGAAGATATATCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCGC
* * *
19057602 ATTATTTTATATTTTTCCTTCATTTTCTGGGGTGGAACAGGTTAGTTTCTTTTTCCGCTCCTTTT
66 ATTATTTTATATTTTTCCTTCATTTTCTGGGCTGGAACAGGTTAGCTTCTTTTTCTGCT-CTTTT
* *
19057667 ATAGTCTAGCGGGGATAGCTCAGTTG
130 AAAGTCAAGCGGGGATAGCTCAGTTG
*
19057693 GGAGAGCGTCAGACTGAAGATGTATCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCGC
1 GGAGAGCGTCAGACTGAAGATATATCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCGC
*
19057758 ATCATTTTAT-TTTT
66 ATTATTTTATATTTT
19057772 CCAGGTTAGC
Statistics
Matches: 490, Mismatches: 42, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
152 27 0.06
153 144 0.29
154 23 0.05
155 12 0.02
156 279 0.57
157 5 0.01
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (155 bp):
GGAGAGCGTCAGACTGAAGATATATCTGTAATCTGAAGGTCGCGTGTTCGATCCACGCTCACCGC
ATTATTTTATATTTTTCCTTCATTTTCTGGGCTGGAACAGGTTAGCTTCTTTTTCTGCTCTTTTA
AAGTCAAGCGGGGATAGCTCAGTTG
Found at i:19068701 original size:46 final size:46
Alignment explanation
Indices: 19068648--19068967 Score: 498
Period size: 46 Copynumber: 7.0 Consensus size: 46
19068638 AGTGTGCTCT
* *
19068648 CTGATATGAAATGTGTAAGACCATGATTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
19068694 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCATC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
19068740 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
19068786 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
19068832 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
19068878 GTGATATGAAATGAACAAGACCATGGTTGAAAAATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
19068924 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
19068968 TCATGTCAAA
Statistics
Matches: 257, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 256 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:19069384 original size:26 final size:26
Alignment explanation
Indices: 19069355--19069412 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
19069345 TCGAGAAAAT
19069355 AGATATATCAATATTGAATTTATATG
1 AGATATATCAATATTGAATTTATATG
*
19069381 AGATATATCAATGTTGAATTTATATG
1 AGATATATCAATATTGAATTTATATG
19069407 AGATAT
1 AGATAT
19069413 GTGCAAGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.41
Consensus pattern (26 bp):
AGATATATCAATATTGAATTTATATG
Found at i:19073910 original size:14 final size:14
Alignment explanation
Indices: 19073873--19073974 Score: 57
Period size: 14 Copynumber: 7.4 Consensus size: 14
19073863 TGTTATTTCA
19073873 ATTTTGGTTTAGGG
1 ATTTTGGTTTAGGG
*
19073887 -TTTAGAGTTTAGGG
1 ATTTTG-GTTTAGGG
*
19073901 ATTTTGGTTTAGAG
1 ATTTTGGTTTAGGG
** *
19073915 -TTTTTATTTTGGG
1 ATTTTGGTTTAGGG
* **
19073928 TTTTTTATTTAGGG
1 ATTTTGGTTTAGGG
* * *
19073942 ATTCTAGTTTTGGGG
1 ATT-TTGGTTTAGGG
*
19073957 ATTTTAGTTTAGGG
1 ATTTTGGTTTAGGG
19073971 -TTTT
1 ATTTT
19073975 TAATTTGTGA
Statistics
Matches: 67, Mismatches: 17, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
13 17 0.25
14 36 0.54
15 14 0.21
ACGTcount: A:0.16, C:0.01, G:0.28, T:0.55
Consensus pattern (14 bp):
ATTTTGGTTTAGGG
Found at i:19073981 original size:28 final size:28
Alignment explanation
Indices: 19073873--19074011 Score: 100
Period size: 29 Copynumber: 4.9 Consensus size: 28
19073863 TGTTATTTCA
** * *
19073873 ATTTTGGTTTAGGGTTTAGAGTTTAGGG
1 ATTTTGGTTTAGGGTTTTTAATTTGGGG
* *
19073901 ATTTTGGTTTAGAGTTTTT-ATTTTGGG
1 ATTTTGGTTTAGGGTTTTTAATTTGGGG
* ** * * *
19073928 TTTTTTATTTAGGGATTCTAGTTTTGGGG
1 ATTTTGGTTTAGGGTTTTTA-ATTTGGGG
* *
19073957 ATTTTAGTTTAGGGTTTTTAATTTGTGAG
1 ATTTTGGTTTAGGGTTTTTAATTTG-GGG
** *
19073986 AAGTTGGTTTAGGGTTTTTTATTTGG
1 ATTTTGGTTTAGGGTTTTTAATTTGG
19074012 CTACGATTAG
Statistics
Matches: 84, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
27 19 0.23
28 21 0.25
29 44 0.52
ACGTcount: A:0.17, C:0.01, G:0.29, T:0.54
Consensus pattern (28 bp):
ATTTTGGTTTAGGGTTTTTAATTTGGGG
Found at i:19074948 original size:22 final size:22
Alignment explanation
Indices: 19074923--19074973 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
19074913 AAAAAAATGA
19074923 GTTAGTGGTTTGATGATTAAGT
1 GTTAGTGGTTTGATGATTAAGT
*
19074945 GTTAGTGGTTTGATGATTACGT
1 GTTAGTGGTTTGATGATTAAGT
*
19074967 ATTAGTG
1 GTTAGTG
19074974 AAATTGTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (22 bp):
GTTAGTGGTTTGATGATTAAGT
Found at i:19075987 original size:16 final size:16
Alignment explanation
Indices: 19075929--19075988 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
19075919 ACTCAATTAT
* * *
19075929 TAAATATTTAAAAAAT
1 TAAAAATTTTAAAAAC
*
19075945 TAAAAATAATTAAAAAC
1 TAAAAAT-TTTAAAAAC
*
19075962 TAAAATTTTTAAAAA-
1 TAAAAATTTTAAAAAC
19075977 TAACAAATTTTA
1 TAA-AAATTTTA
19075989 TTATAATAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
15 3 0.09
16 20 0.57
17 12 0.34
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAAATTTTAAAAAC
Found at i:19076016 original size:13 final size:13
Alignment explanation
Indices: 19075998--19076022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19075988 ATTATAATAA
19075998 TATTTATTCTATC
1 TATTTATTCTATC
19076011 TATTTATTCTAT
1 TATTTATTCTAT
19076023 ACCTATATTA
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:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTATTCTATC
Found at i:19076152 original size:20 final size:21
Alignment explanation
Indices: 19076117--19076156 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
19076107 GCCAAAAATT
*
19076117 AAAAATTATTTTTAAAAATAA
1 AAAAATTATTTATAAAAATAA
19076138 AAAAATTA-TTATAAAAATA
1 AAAAATTATTTATAAAAATA
19076157 TTTATGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATTATTTATAAAAATAA
Found at i:19076361 original size:50 final size:50
Alignment explanation
Indices: 19076306--19076410 Score: 183
Period size: 50 Copynumber: 2.1 Consensus size: 50
19076296 GATTTCTTTT
* *
19076306 TATATAATATTTTTCCTACACCCGCAATTTGGATGTTGCATTTACTATAC
1 TATATAATATATTTCCTACACCCACAATTTGGATGTTGCATTTACTATAC
*
19076356 TATATAATATATTTCCTACACCCACAATTTGGATGTTGCATTTACTATAT
1 TATATAATATATTTCCTACACCCACAATTTGGATGTTGCATTTACTATAC
19076406 TATAT
1 TATAT
19076411 CATACTTACA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (50 bp):
TATATAATATATTTCCTACACCCACAATTTGGATGTTGCATTTACTATAC
Found at i:19077032 original size:21 final size:21
Alignment explanation
Indices: 19077008--19077050 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
19076998 ATTTAGTCAA
*
19077008 AGAGTTTATTAATATTACTAG
1 AGAGTTTATTAATAATACTAG
19077029 AGAGTTTATTAATAATACTAG
1 AGAGTTTATTAATAATACTAG
19077050 A
1 A
19077051 AATCCTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.40
Consensus pattern (21 bp):
AGAGTTTATTAATAATACTAG
Found at i:19081025 original size:26 final size:26
Alignment explanation
Indices: 19080990--19081041 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
19080980 TATTTTTATG
19080990 TAATATTTTGAAA-TAAAAAAATAAT
1 TAATATTTTGAAATTAAAAAAATAAT
19081015 TAATAGTTTTGAAATTAAAAAAATAAT
1 TAATA-TTTTGAAATTAAAAAAATAAT
19081042 GTTATAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 5 0.20
26 8 0.32
27 12 0.48
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (26 bp):
TAATATTTTGAAATTAAAAAAATAAT
Found at i:19082369 original size:16 final size:16
Alignment explanation
Indices: 19082331--19082369 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
19082321 TTGTATTCTA
19082331 ATTTTATATTATTTAT
1 ATTTTATATTATTTAT
*
19082347 ATATTATATTACTTTAT
1 ATTTTATATTA-TTTAT
19082364 -TTTTAT
1 ATTTTAT
19082370 CTAAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTATATTATTTAT
Found at i:19085134 original size:132 final size:132
Alignment explanation
Indices: 19084924--19085180 Score: 469
Period size: 132 Copynumber: 1.9 Consensus size: 132
19084914 TTTCCTCAAC
*
19084924 AGAGTTGTTTTCAATGTATAGGTTGTTCTAAATAAGAGTTGTTCAATGGTGATACTTTTATTGAC
1 AGAGTTGTTTTCAATGTAAAGGTTGTTCTAAATAAGAGTTGTTCAATGGTGATACTTTTATTGAC
19084989 AAAGCTTGTTCTGAATAATGACTCTTTCAAAAAAACACAATTGTTCTAAATACAAGTTGTCCTCG
66 AAAGCTTGTTCTGAATAATGACTCTTTCAAAAAAACACAATTGTTCTAAATACAAGTTGTCCTCG
19085054 AT
131 AT
* * *
19085056 AGAGTTGTTTTCAATGTAAAGGTTGTTCTGAATAAGAGTTGTTCAGTGGTGATACTTTTATTTAC
1 AGAGTTGTTTTCAATGTAAAGGTTGTTCTAAATAAGAGTTGTTCAATGGTGATACTTTTATTGAC
*
19085121 AAAGCTTGTTCTGAATAATGACTCTTTCAAAAAAACACAATTGTTTTAAATACAAGTTGT
66 AAAGCTTGTTCTGAATAATGACTCTTTCAAAAAAACACAATTGTTCTAAATACAAGTTGT
19085181 TCCAAACAAT
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 120 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.39
Consensus pattern (132 bp):
AGAGTTGTTTTCAATGTAAAGGTTGTTCTAAATAAGAGTTGTTCAATGGTGATACTTTTATTGAC
AAAGCTTGTTCTGAATAATGACTCTTTCAAAAAAACACAATTGTTCTAAATACAAGTTGTCCTCG
AT
Found at i:19086838 original size:126 final size:126
Alignment explanation
Indices: 19086497--19086830 Score: 533
Period size: 126 Copynumber: 2.7 Consensus size: 126
19086487 GGTATTAGAA
*
19086497 AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTTTGGAAAAAGCTCCTACGTGGACGCTCT
1 AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTTTGGAAAAAGCTCCCACGTGGACGCTCT
* *
19086562 TTTACTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAGTGTCG
66 TTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAATGTCG
* * * * *
19086623 GAAACGCTTCAAGCAGGATACACTGTCAACAAAATTTCTGGAAAAAGCTCCCACGTGGACGCACT
1 AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTTTGGAAAAAGCTCCCACGTGGACGCTCT
* * *
19086688 TTTGCTACAGTGGTTCGTAGAAAAATAATTCTGAGTAGACGTTTCTGAACAAATAATTTCG
66 TTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAATGTCG
* * * *
19086749 AAAACGCTTCAAGCAGGATGCACTGTTAGTAAAATTTTTGGAAAAAGCTTCGACGTGGACGCTCT
1 AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTTTGGAAAAAGCTCCCACGTGGACGCTCT
19086814 TTTGCTACAGTAGTTCG
66 TTTGCTACAGTAGTTCG
19086831 AAAAAAAAAT
Statistics
Matches: 187, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 187 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (126 bp):
AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTTTTGGAAAAAGCTCCCACGTGGACGCTCT
TTTGCTACAGTAGTTCGTAGAAAAATAATTCTGAGTAGACATTTCTGAACAAATAATGTCG
Found at i:19090351 original size:18 final size:18
Alignment explanation
Indices: 19090328--19090365 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
19090318 GGAAAAGAAA
*
19090328 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
19090346 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
19090364 AC
1 AC
19090366 GCACCTGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:19091957 original size:23 final size:23
Alignment explanation
Indices: 19091922--19091965 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
19091912 ATAAAACAAA
*
19091922 AATTAATTAAAAT-TGCATAAATT
1 AATTAATGAAAATAT-CATAAATT
*
19091945 AATTAATGCAAATATCATAAA
1 AATTAATGAAAATATCATAAA
19091966 CGAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.34
Consensus pattern (23 bp):
AATTAATGAAAATATCATAAATT
Found at i:19092035 original size:48 final size:47
Alignment explanation
Indices: 19091960--19092093 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 47
19091950 ATGCAAATAT
* * **
19091960 CATAAACGAAAAAAA-ACCAAGCAGTATTGAAATTGTAATTATAA-TTG
1 CATAAATGAAAAAAATATCAAATAGTATTGAAATT-TAATTA-AATTTG
*
19092007 CATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAAAAAAATATCAAATAGTATTG-AAATTTAATTAAATTTG
* *
19092055 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATATCAAATAGTATTG-AAATTTAA
19092094 AATTATCACT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
47 15 0.20
48 55 0.73
49 5 0.07
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (47 bp):
CATAAATGAAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTG
Found at i:19092227 original size:15 final size:16
Alignment explanation
Indices: 19092195--19092227 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
19092185 TTTTTAATTT
19092195 AAAAAAATTAAATTCAA
1 AAAAAAATTAAA-TCAA
19092212 AAAAAAATTAAA-CAA
1 AAAAAAATTAAATCAA
19092227 A
1 A
19092228 GAATTTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
17 12 0.75
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAAATTAAATCAA
Found at i:19093740 original size:31 final size:31
Alignment explanation
Indices: 19093702--19093764 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
19093692 CTTGTTGAGC
19093702 TTCTTTAACAAGTGTTCCAACTCTAGAAATG
1 TTCTTTAACAAGTGTTCCAACTCTAGAAATG
19093733 TTCTTTAACAAGTGTTCCAACTCTAGAAATG
1 TTCTTTAACAAGTGTTCCAACTCTAGAAATG
19093764 T
1 T
19093765 CATTGTGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (31 bp):
TTCTTTAACAAGTGTTCCAACTCTAGAAATG
Found at i:19097524 original size:70 final size:68
Alignment explanation
Indices: 19097383--19097527 Score: 157
Period size: 70 Copynumber: 2.1 Consensus size: 68
19097373 ATTTATTTAG
* * * **
19097383 TTTTTTTTAATTTAAAAATATTATTTTATTTGGTGAAGTCATATAGAACGGCGTTATTAGTATCA
1 TTTTTTATAATTTAAAAATATTATTATATTTGATGAAGTCATATAGAACGGCGTTACCAGTATCA
19097448 GAA
66 GAA
* * * *
19097451 TTTTTTATAATTTTAAAAAATGTTATTATATTTGATGAAG-CTATATAGAATGGTGTTACCAGTG
1 TTTTTTATAA-TTT-AAAAATATTATTATATTTGATGAAGTC-ATATAGAACGGCGTTACCAGTA
*
19097515 TCAAGAT
63 TC-AGAA
19097522 TTTTTT
1 TTTTTT
19097528 TAGTCTTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
68 9 0.14
69 4 0.06
70 41 0.65
71 9 0.14
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (68 bp):
TTTTTTATAATTTAAAAATATTATTATATTTGATGAAGTCATATAGAACGGCGTTACCAGTATCA
GAA
Found at i:19098391 original size:23 final size:24
Alignment explanation
Indices: 19098365--19098414 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
19098355 TGATCTTTAA
19098365 ATTTTA-AATTATTTAGTGATAAT
1 ATTTTAGAATTATTTAGTGATAAT
*
19098388 A-TTTAGGATTATTTAGTGATAAT
1 ATTTTAGAATTATTTAGTGATAAT
19098411 ATTT
1 ATTT
19098415 AGGAAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 18 0.75
24 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (24 bp):
ATTTTAGAATTATTTAGTGATAAT
Found at i:19098392 original size:13 final size:13
Alignment explanation
Indices: 19098374--19098416 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
19098364 AATTTTAAAT
19098374 TATTTAGTGATAA
1 TATTTAGTGATAA
19098387 TATTTAG-GAT--
1 TATTTAGTGATAA
19098397 TATTTAGTGATAA
1 TATTTAGTGATAA
19098410 TATTTAG
1 TATTTAG
19098417 GAAAAATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:19098415 original size:23 final size:23
Alignment explanation
Indices: 19098372--19098418 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
19098362 TAAATTTTAA
19098372 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
19098395 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
19098418 A
1 A
19098419 AAAATCTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:19108230 original size:24 final size:24
Alignment explanation
Indices: 19108175--19108231 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
19108165 AAAAACTTGA
19108175 AATAAACAAATAAAATAGAAATTTG
1 AATAAA-AAATAAAATAGAAATTTG
* * *
19108200 AAAAAAAAATAAAAT-GAATTTTT
1 AATAAAAAATAAAATAGAAATTTG
19108223 ATATAAAAA
1 A-ATAAAAA
19108232 TAATAAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 7 0.26
24 15 0.56
25 5 0.19
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (24 bp):
AATAAAAAATAAAATAGAAATTTG
Found at i:19108306 original size:9 final size:9
Alignment explanation
Indices: 19108289--19108412 Score: 85
Period size: 9 Copynumber: 13.8 Consensus size: 9
19108279 TAATAGTATG
*
19108289 ATAAGAATA
1 ATAATAATA
19108298 ATAATAATA
1 ATAATAATA
* **
19108307 GTGGTAATA
1 ATAATAATA
*
19108316 ATACTAATA
1 ATAATAATA
19108325 ATAATAATA
1 ATAATAATA
* *
19108334 ACAATACTA
1 ATAATAATA
19108343 ATTAA-AATA
1 A-TAATAATA
*
19108352 ATAGTAATA
1 ATAATAATA
19108361 ATAATAATA
1 ATAATAATA
19108370 GA-AATAATA
1 -ATAATAATA
*
19108379 ATATTAGA-A
1 ATAATA-ATA
*
19108388 ATATTAATA
1 ATAATAATA
19108397 A-ACATAATA
1 ATA-ATAATA
*
19108406 ATGATAA
1 ATAATAA
19108413 ATATAAAACT
Statistics
Matches: 90, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
8 5 0.06
9 81 0.90
10 4 0.04
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (9 bp):
ATAATAATA
Found at i:19108326 original size:12 final size:12
Alignment explanation
Indices: 19108296--19108366 Score: 63
Period size: 12 Copynumber: 5.9 Consensus size: 12
19108286 ATGATAAGAA
19108296 TAATAATAATAG
1 TAATAATAATAG
** *
19108308 TGGTAATAATAC
1 TAATAATAATAG
*
19108320 TAATAATAATAA
1 TAATAATAATAG
* * *
19108332 TAACAATACTAAT
1 TAATAATAAT-AG
19108345 TAA-AATAATAG
1 TAATAATAATAG
19108356 TAATAATAATA
1 TAATAATAATA
19108367 ATAGAAATAA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 4 0.09
12 38 0.83
13 4 0.09
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:19108329 original size:15 final size:15
Alignment explanation
Indices: 19108296--19108397 Score: 98
Period size: 15 Copynumber: 6.8 Consensus size: 15
19108286 ATGATAAGAA
* *
19108296 TAATAATAATAGTGG
1 TAATAATAATAATAG
* *
19108311 TAATAATACTAATAA
1 TAATAATAATAATAG
* *
19108326 TAATAATAACAATAC
1 TAATAATAATAATAG
19108341 TAATTAA-AATAATAG
1 TAA-TAATAATAATAG
19108356 TAATAATAATAATAG
1 TAATAATAATAATAG
* *
19108371 AAATAATAATATTAG
1 TAATAATAATAATAG
* *
19108386 AAATATTAATAA
1 TAATAATAATAA
19108398 ACATAATAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
14 3 0.04
15 66 0.92
16 3 0.04
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (15 bp):
TAATAATAATAATAG
Found at i:19109730 original size:44 final size:44
Alignment explanation
Indices: 19109435--19109734 Score: 155
Period size: 45 Copynumber: 6.8 Consensus size: 44
19109425 TGGTGACTTA
* * * * **
19109435 AATCTGCTCCACTGCCGCTATATGGAGATAAGATTCACCGCCTTC
1 AATCTGCTCCACTACTGCT-CAGGGAGATAAGATTCACCATCTTC
* * * * * *
19109480 GATTTGCTCCACTGCTACTTCAGGGAGATAAGA-TCTACAATCTAC
1 AATCTGCTCCACTACTGC-TCAGGGAGATAAGATTC-ACCATCTTC
* * *
19109525 AATCTGCTTCC-CTATTTCCTC-GGGAAGATAAGATTCGCCATCTTC
1 AATCTGC-TCCACTA-CTGCTCAGGG-AGATAAGATTCACCATCTTC
* * * * *
19109570 GATCTACTCCACTACTGCTTAGGTAGATAAGA-TCTACAATCTTC
1 AATCTGCTCCACTACTGCTCAGGGAGATAAGATTC-ACCATCTTC
** * * ** *** *
19109614 AGCCTTCTCCACTACTGCTCAGGGAAATAAGGCT-ACTGGCTTA
1 AATCTGCTCCACTACTGCTCAGGGAGATAAGATTCACCATCTTC
* * *
19109657 AATCTACTTCC-CTACTACCTC-GGGAAGATAAGATTCACCGTCTTC
1 AATCTGC-TCCACTACT-GCTCAGGG-AGATAAGATTCACCATCTTC
*
19109702 AATCTGCTCCACTATTGCTCAGGGAGATAAGAT
1 AATCTGCTCCACTACTGCTCAGGGAGATAAGAT
19109735 CTGTGAATTA
Statistics
Matches: 188, Mismatches: 51, Indels: 33
0.69 0.19 0.12
Matches are distributed among these distances:
43 19 0.10
44 78 0.41
45 83 0.44
46 8 0.04
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTACTGCTCAGGGAGATAAGATTCACCATCTTC
Found at i:19122064 original size:6 final size:6
Alignment explanation
Indices: 19122053--19122179 Score: 64
Period size: 6 Copynumber: 21.2 Consensus size: 6
19122043 TAATAGTATG
* * * * * *
19122053 ATAATA ATAATA ATAGTG GTAATA ATACTA ATACTA ACAATA ATAATA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
* * * * *
19122101 ACAATA CTACTTA A-AATA ATAGTA ATAGTA ATAATA GA-AATA ATAATA
1 ATAATA ATA-ATA ATAATA ATAATA ATAATA ATAATA -ATAATA ATAATA
* * *
19122149 TTAGA-A ATATTA ATAA-A CATAATA ATGATA A
1 ATA-ATA ATAATA ATAATA -ATAATA ATAATA A
19122180 ATATAAAACT
Statistics
Matches: 90, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
5 5 0.06
6 80 0.89
7 5 0.06
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (6 bp):
ATAATA
Found at i:19122067 original size:9 final size:9
Alignment explanation
Indices: 19122053--19122179 Score: 64
Period size: 9 Copynumber: 14.1 Consensus size: 9
19122043 TAATAGTATG
19122053 ATAATAATA
1 ATAATAATA
* *
19122062 ATAATAGTG
1 ATAATAATA
*
19122071 GTAATAATA
1 ATAATAATA
* *
19122080 CTAATACTA
1 ATAATAATA
*
19122089 ACAATAATA
1 ATAATAATA
*
19122098 ATAACAATA
1 ATAATAATA
* *
19122107 CTACTTAA-A
1 ATA-ATAATA
*
19122116 ATAATAGTA
1 ATAATAATA
*
19122125 ATAGTAATA
1 ATAATAATA
19122134 ATAGA-AATA
1 ATA-ATAATA
*
19122143 ATAATATTA
1 ATAATAATA
*
19122152 GA-AATATTA
1 -ATAATAATA
19122161 ATAA-ACATA
1 ATAATA-ATA
*
19122170 ATAATGATA
1 ATAATAATA
19122179 A
1 A
19122180 ATATAAAACT
Statistics
Matches: 86, Mismatches: 24, Indels: 16
0.68 0.19 0.13
Matches are distributed among these distances:
8 5 0.06
9 78 0.91
10 3 0.03
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (9 bp):
ATAATAATA
Found at i:19122127 original size:21 final size:21
Alignment explanation
Indices: 19122072--19122148 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 21
19122062 ATAATAGTGG
*
19122072 TAATAATACTAATACTAACAA
1 TAATAATAATAATACTAACAA
*
19122093 TAATAATAACAATACT-ACTTAA
1 TAATAATAATAATACTAAC--AA
* * *
19122115 -AATAATAGTAATAGTAATAA
1 TAATAATAATAATACTAACAA
19122135 TAGA-AATAATAATA
1 TA-ATAATAATAATA
19122149 TTAGAAATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
20 4 0.09
21 36 0.82
22 4 0.09
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (21 bp):
TAATAATAATAATACTAACAA
Found at i:19122133 original size:15 final size:15
Alignment explanation
Indices: 19122115--19122164 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
19122105 TACTACTTAA
* *
19122115 AATAATAGTAATAGT
1 AATAATAGAAATAAT
19122130 AATAATAGAAATAAT
1 AATAATAGAAATAAT
* *
19122145 AATATTAGAAATATT
1 AATAATAGAAATAAT
19122160 AATAA
1 AATAA
19122165 ACATAATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (15 bp):
AATAATAGAAATAAT
Found at i:19123950 original size:43 final size:43
Alignment explanation
Indices: 19123884--19123970 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
19123874 TAAAAAAGTG
*
19123884 ATTGATTACACTGGTGGCGCCATTCTATATGGCTCCACTAAAT
1 ATTGATTACACTGGTGGCACCATTCTATATGGCTCCACTAAAT
19123927 ATTGATTACACTGGTGGCACCATTCTATATGGCTCCACTAAAT
1 ATTGATTACACTGGTGGCACCATTCTATATGGCTCCACTAAAT
19123970 A
1 A
19123971 AAATAACATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (43 bp):
ATTGATTACACTGGTGGCACCATTCTATATGGCTCCACTAAAT
Found at i:19124915 original size:23 final size:22
Alignment explanation
Indices: 19124868--19124947 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 22
19124858 TTATTTTTAA
* *
19124868 AAAAATATTTAATAAATGTATAT
1 AAAAATATTT-ATAAATTTAAAT
19124891 AAAAATATTTATAAATATTAAAT
1 AAAAATATTTATAAAT-TTAAAT
*
19124914 AATAAA-ATTAAATAAATTTTAAAT
1 AA-AAATATT-TATAAA-TTTAAAT
19124938 ATAAAATATT
1 A-AAAATATT
19124948 AATCAATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
22 6 0.12
23 19 0.40
24 18 0.38
25 5 0.10
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (22 bp):
AAAAATATTTATAAATTTAAAT
Found at i:19124941 original size:13 final size:13
Alignment explanation
Indices: 19124900--19124949 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
19124890 TAAAAATATT
19124900 TATAAATATTAAA
1 TATAAATATTAAA
19124913 TAATAAA-ATT-AA
1 T-ATAAATATTAAA
*
19124925 -ATAAATTTTAAA
1 TATAAATATTAAA
19124937 TATAAAATATTAA
1 TAT-AAATATTAA
19124950 TCAATAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 5 0.17
11 2 0.07
12 4 0.13
13 6 0.20
14 13 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATAAATATTAAA
Found at i:19125913 original size:13 final size:15
Alignment explanation
Indices: 19125889--19125920 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
19125879 AATTACCTTA
19125889 AAAAATTAAAATAT-
1 AAAAATTAAAATATC
19125903 AAAAATT-AAATATC
1 AAAAATTAAAATATC
19125917 AAAA
1 AAAA
19125921 CTGAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAAATTAAAATATC
Found at i:19131315 original size:240 final size:240
Alignment explanation
Indices: 19130892--19131372 Score: 926
Period size: 240 Copynumber: 2.0 Consensus size: 240
19130882 CGCAAGAAGA
19130892 AAGACAAGCAGATTATGGCCAAGGGAAGGAGATATTGAAACAAGAGGTGTAGATTTATTTATTTA
1 AAGACAAGCAGATTATGGCCAAGGGAAGGAGATATTGAAACAAGAGGTGTAGATTTATTTATTTA
* *
19130957 TTTATTTTTGCCTCCTTTTTGATATGTCAATGATCGCGGTAATCTTGGACTAGCTTAATGATGTT
66 TTTATTTTTGCCTCCTTTTTGAGATGTCAATGATCGCGGTAATCTTGGACTAGCTTAATCATGTT
*
19131022 GAGAAGGGATTGTAACTCTTGTAGTGTCGAAACGAGTTTCCATCCCTCCTACAAATTGCCAGAAT
131 GAGAAGGGATTGTAACTCTTGTAGTGTCGAAACGAGTTTCCATCCCACCTACAAATTGCCAGAAT
19131087 AATGTCAACTTACTTTTGGATGTTGGTTAACTTACAAGATGTGAT
196 AATGTCAACTTACTTTTGGATGTTGGTTAACTTACAAGATGTGAT
*
19131132 AAGACAAGCAGATTATGGCCGAGGGAAGGAGATATTGAAACAAGAGGTGTAGATTTATTTATTTA
1 AAGACAAGCAGATTATGGCCAAGGGAAGGAGATATTGAAACAAGAGGTGTAGATTTATTTATTTA
19131197 TTTATTTTTGCCTCCTTTTTGAGATGTCAATGATCGCGGTAATCTTGGACTAGCTTAATCATGTT
66 TTTATTTTTGCCTCCTTTTTGAGATGTCAATGATCGCGGTAATCTTGGACTAGCTTAATCATGTT
19131262 GAGAAGGGATTGTAACTCTTGTAGTGTCGAAACGAGTTTCCATCCCACCTACAAATTGCCAGAAT
131 GAGAAGGGATTGTAACTCTTGTAGTGTCGAAACGAGTTTCCATCCCACCTACAAATTGCCAGAAT
19131327 AATGTCAACTTACTTTTGGATGTTGGTTAACTTACAAGATGTGAT
196 AATGTCAACTTACTTTTGGATGTTGGTTAACTTACAAGATGTGAT
19131372 A
1 A
19131373 CTTAGGTCCA
Statistics
Matches: 237, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
240 237 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (240 bp):
AAGACAAGCAGATTATGGCCAAGGGAAGGAGATATTGAAACAAGAGGTGTAGATTTATTTATTTA
TTTATTTTTGCCTCCTTTTTGAGATGTCAATGATCGCGGTAATCTTGGACTAGCTTAATCATGTT
GAGAAGGGATTGTAACTCTTGTAGTGTCGAAACGAGTTTCCATCCCACCTACAAATTGCCAGAAT
AATGTCAACTTACTTTTGGATGTTGGTTAACTTACAAGATGTGAT
Found at i:19133691 original size:17 final size:17
Alignment explanation
Indices: 19133649--19133696 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
19133639 TTTATTGCAT
*
19133649 TTTATTTTTGTTTTTAG
1 TTTATTTTTGTTTTTAA
19133666 TTTAATTTTTGTTTTCTAA
1 TTT-ATTTTTGTTTT-TAA
19133685 TTT-TTTTTGTTT
1 TTTATTTTTGTTT
19133697 ATTTCTGGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 12 0.43
18 11 0.39
19 5 0.18
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.77
Consensus pattern (17 bp):
TTTATTTTTGTTTTTAA
Found at i:19140100 original size:12 final size:12
Alignment explanation
Indices: 19140083--19140118 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
19140073 GCCGAATCTA
19140083 CCATCTCTTCTT
1 CCATCTCTTCTT
*
19140095 CCATCTTTTCTT
1 CCATCTCTTCTT
*
19140107 CCTTCTCTTCTT
1 CCATCTCTTCTT
19140119 TCAAACCAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.56
Consensus pattern (12 bp):
CCATCTCTTCTT
Found at i:19141307 original size:11 final size:11
Alignment explanation
Indices: 19141271--19141326 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
19141261 CATGGTATGT
19141271 ATGATATGCAC
1 ATGATATGCAC
* *
19141282 ATGACATG--T
1 ATGATATGCAC
19141291 ATGATATGCAC
1 ATGATATGCAC
*
19141302 ATGATATG--T
1 ATGATATGCAC
19141311 ATGATATGCAC
1 ATGATATGCAC
19141322 ATGAT
1 ATGAT
19141327 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:19141326 original size:20 final size:20
Alignment explanation
Indices: 19141260--19141326 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
19141250 ATTTTGATAA
*
19141260 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
19141280 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
19141300 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
19141320 ACATGAT
1 ACATGAT
19141327 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:19141497 original size:23 final size:24
Alignment explanation
Indices: 19141375--19141517 Score: 188
Period size: 23 Copynumber: 6.0 Consensus size: 24
19141365 GGAGGAAGTG
19141375 TAAAA-GGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
19141398 GATAAA-GGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
19141422 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
19141447 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
19141470 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
19141493 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
19141518 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 10
0.90 0.02 0.08
Matches are distributed among these distances:
23 43 0.39
24 42 0.38
25 26 0.23
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:19141514 original size:48 final size:49
Alignment explanation
Indices: 19141375--19141517 Score: 190
Period size: 48 Copynumber: 3.0 Consensus size: 49
19141365 GGAGGAAGTG
* *
19141375 TAAAA-GGCTTATGCCCCAGTTATGATAA-AGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTTATGCCCCAGTTAT
*
19141422 GATAAAGGGCTTATGCCCCAGTTATT-AAAG-GGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTTATGCCCCAGTTAT
*
19141470 TAAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTTATGCC-CCAGTTAT
19141518 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
46 13 0.15
47 19 0.22
48 35 0.41
49 18 0.21
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (49 bp):
TAAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTTATGCCCCAGTTAT
Found at i:19141761 original size:29 final size:30
Alignment explanation
Indices: 19141710--19141770 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
19141700 CGTTTACAGT
19141710 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTC-GCCCAGTAATATGAAATATGA
**
19141741 AAAGGCTT-GCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGCCCAGTAATATGAAATATGA
19141770 A
1 A
19141771 GTGTGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 20 0.71
31 8 0.29
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (30 bp):
AAAGGCTTCGCCCAGTAATATGAAATATGA
Found at i:19149386 original size:20 final size:20
Alignment explanation
Indices: 19149320--19149386 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
19149310 ATTTTGATAA
*
19149320 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
19149340 ACATGACACGTATGATATGC
1 ACATGATATGTATGATATGC
*
19149360 ACATGATATGTATGATATGT
1 ACATGATATGTATGATATGC
19149380 ACATGAT
1 ACATGAT
19149387 GTATTCATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:19149470 original size:25 final size:25
Alignment explanation
Indices: 19149437--19149614 Score: 231
Period size: 25 Copynumber: 7.2 Consensus size: 25
19149427 GGGAAGTGTA
* *
19149437 AAAGGGCTTATACTCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
19149462 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
19149487 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
19149512 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
19149536 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
19149560 AAAGGGCTT-TGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
19149583 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
19149611 AAAG
1 AAAG
19149615 CAGCTATGCT
Statistics
Matches: 142, Mismatches: 5, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
23 19 0.13
24 39 0.27
25 75 0.53
26 1 0.01
27 4 0.03
28 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:19150518 original size:14 final size:14
Alignment explanation
Indices: 19150499--19150526 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19150489 CTTCAGATTC
19150499 GGCCATAACGTCTA
1 GGCCATAACGTCTA
19150513 GGCCATAACGTCTA
1 GGCCATAACGTCTA
19150527 AATAATTACC
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:0.29, G:0.21, T:0.21
Consensus pattern (14 bp):
GGCCATAACGTCTA
Found at i:19153606 original size:6 final size:6
Alignment explanation
Indices: 19153595--19153662 Score: 59
Period size: 6 Copynumber: 11.5 Consensus size: 6
19153585 CCATTTATCA
** * *
19153595 TTTATT TTTA-T TTCCTT TTTA-T TTTATT TTTAGT TTTATT TATATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
19153641 TTTATG TTTATT GTTATGT TTT
1 TTTATT TTTATT TTTAT-T TTT
19153663 TAGACTTCTT
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
5 8 0.17
6 36 0.77
7 3 0.06
ACGTcount: A:0.16, C:0.03, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:19153696 original size:12 final size:12
Alignment explanation
Indices: 19153679--19153704 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19153669 TCTTTTGTTT
19153679 TTATATTTTGAA
1 TTATATTTTGAA
19153691 TTATATTTTGAA
1 TTATATTTTGAA
19153703 TT
1 TT
19153705 GTTATGGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (12 bp):
TTATATTTTGAA
Found at i:19155666 original size:20 final size:20
Alignment explanation
Indices: 19155641--19155680 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
19155631 AGCACACAGA
19155641 GAAGAACG-AAGAAATTACTC
1 GAAGAACGCAA-AAATTACTC
19155661 GAAGAACGCAAAAATTACTC
1 GAAGAACGCAAAAATTACTC
19155681 AGCCGTCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.15
Consensus pattern (20 bp):
GAAGAACGCAAAAATTACTC
Found at i:19161406 original size:43 final size:44
Alignment explanation
Indices: 19161270--19161441 Score: 176
Period size: 43 Copynumber: 4.0 Consensus size: 44
19161260 ACATAGGATC
* * * * *
19161270 CGATATGTGTTTTCTTGTAAGACCACGTCTAGGA-TGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTAGGACAGTTGGCAT
* *
19161313 CGACT-TATGATTTACGTGTAAGACCATGTCTAGGACA-TCGGCAT
1 CGA-TATTTGATTT-CGTGTAAGACCATGTCTAGGACAGTTGGCAT
* *
19161357 CG-TATTTGATTTTGTGTAAGACCATGTCTGGGACAG-TGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTAGGACAGTTGGCAT
* * *
19161399 CGATATTTGATTACATGTAAGACCATGTCTGGGAC-GTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTAGGACAGTTGGCAT
19161442 TGTACGAGCT
Statistics
Matches: 109, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
42 30 0.28
43 51 0.47
44 28 0.26
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.34
Consensus pattern (44 bp):
CGATATTTGATTTCGTGTAAGACCATGTCTAGGACAGTTGGCAT
Found at i:19166428 original size:19 final size:19
Alignment explanation
Indices: 19166368--19166428 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 19
19166358 TATTAGTTTC
19166368 AATACATGCATCTAATA-ATA
1 AATACATGCATCT--TAGATA
*
19166388 AAT--ATGTATC-TAG-TA
1 AATACATGCATCTTAGATA
*
19166403 CATACATGCATCTTAGATA
1 AATACATGCATCTTAGATA
19166422 AATACAT
1 AATACAT
19166429 TCATGCATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
15 6 0.19
17 6 0.19
18 9 0.28
19 8 0.25
20 3 0.09
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (19 bp):
AATACATGCATCTTAGATA
Found at i:19170696 original size:349 final size:350
Alignment explanation
Indices: 19170056--19170755 Score: 1384
Period size: 349 Copynumber: 2.0 Consensus size: 350
19170046 ACCCATCGCC
19170056 AAATATAGCGGACATCCATTAGCCTAACAAACAGAGGTCTAATCATGGGATTATGCTAACTAACA
1 AAATATAGCGGACATCCATTAGCCTAACAAACAGAGGTCTAATCATGGGATTATGCTAACTAACA
19170121 AAGCATTGCATACCCAAATATAATAGATGAATATTTGCCCATTCATGTTTTGAACTAAAAAAAAA
66 AAGCATTGCATACCCAAATATAATAGATGAATATTTGCCCATTCATGTTTTGAACTAAAAAAAAA
19170186 AGAATAGTTTTACCGCATTGGGGTGCCAACCTGTTCAAAGGTGGCAACTACAGCAGCAACATGCA
131 AGAATAGTTTTACCGCATTGGGGTGCCAACCTGTTCAAAGGTGGCAACTACAGCAGCAACATGCA
19170251 TGCAACCATGCAATCATGCACGAGCATGCAAGTGACCGAGCATCACAGCTGAAGCATGCTATTGT
196 TGCAACCATGCAATCATGCACGAGCATGCAAGTGACCGAGCATCACAGCTGAAGCATGCTATTGT
19170316 CCAAGGAGTAATTCAATTGGCATGTCCATGTGACAATTGACTTTTGTTGTTTCAATGTAACCTTT
261 CCAAGGAGTAATTCAATTGGCATGTCCATGTGACAATTGACTTTTGTTGTTTCAATGTAACCTTT
19170381 TGTATTTGCTAAGGTTTAGTAAGAT
326 TGTATTTGCTAAGGTTTAGTAAGAT
*
19170406 AAATATAGCGGACATCCATTAGCCTAACAAATAGAGGTCTAATCATGGGATTATGCTAACTAACA
1 AAATATAGCGGACATCCATTAGCCTAACAAACAGAGGTCTAATCATGGGATTATGCTAACTAACA
19170471 AAGCATTGCATACCCAAATATAATAGATGAATATTTGCCCATTCATGTTTTGAACT-AAAAAAAA
66 AAGCATTGCATACCCAAATATAATAGATGAATATTTGCCCATTCATGTTTTGAACTAAAAAAAAA
19170535 AGAATAGTTTTACCGCATTGGGGTGCCAACCTGTTCAAAGGTGGCAACTACAGCAGCAACATGCA
131 AGAATAGTTTTACCGCATTGGGGTGCCAACCTGTTCAAAGGTGGCAACTACAGCAGCAACATGCA
19170600 TGCAACCATGCAATCATGCACGAGCATGCAAGTGACCGAGCATCACAGCTGAAGCATGCTATTGT
196 TGCAACCATGCAATCATGCACGAGCATGCAAGTGACCGAGCATCACAGCTGAAGCATGCTATTGT
19170665 CCAAGGAGTAATTCAATTGGCATGTCCATGTGACAATTGACTTTTGTTGTTTCAATGTAACCTTT
261 CCAAGGAGTAATTCAATTGGCATGTCCATGTGACAATTGACTTTTGTTGTTTCAATGTAACCTTT
19170730 TGTATTTGCTAAGGTTTAGTAAGAT
326 TGTATTTGCTAAGGTTTAGTAAGAT
19170755 A
1 A
19170756 CTTAGTTGTT
Statistics
Matches: 349, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
349 229 0.66
350 120 0.34
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (350 bp):
AAATATAGCGGACATCCATTAGCCTAACAAACAGAGGTCTAATCATGGGATTATGCTAACTAACA
AAGCATTGCATACCCAAATATAATAGATGAATATTTGCCCATTCATGTTTTGAACTAAAAAAAAA
AGAATAGTTTTACCGCATTGGGGTGCCAACCTGTTCAAAGGTGGCAACTACAGCAGCAACATGCA
TGCAACCATGCAATCATGCACGAGCATGCAAGTGACCGAGCATCACAGCTGAAGCATGCTATTGT
CCAAGGAGTAATTCAATTGGCATGTCCATGTGACAATTGACTTTTGTTGTTTCAATGTAACCTTT
TGTATTTGCTAAGGTTTAGTAAGAT
Found at i:19178691 original size:13 final size:13
Alignment explanation
Indices: 19178673--19178698 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19178663 GTAAAGTTTC
19178673 AAATATTGTTAAG
1 AAATATTGTTAAG
19178686 AAATATTGTTAAG
1 AAATATTGTTAAG
19178699 TAACGATAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
AAATATTGTTAAG
Found at i:19179029 original size:21 final size:21
Alignment explanation
Indices: 19179005--19179045 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19178995 ATAACATAAC
*
19179005 ATAATCAAGTTGTAA-GAAGTT
1 ATAAT-AAGTTGCAATGAAGTT
19179026 ATAATAAGTTGCAATGAAGT
1 ATAATAAGTTGCAATGAAGT
19179046 GGGAAGAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (21 bp):
ATAATAAGTTGCAATGAAGTT
Found at i:19183496 original size:30 final size:30
Alignment explanation
Indices: 19183431--19183498 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
19183421 CGATGGACAT
* * *
19183431 GAAGATGAAGACGAAGCTGATGGTTGAGAT
1 GAAGATGAAGACGAAGCTGAAGGTGGAGAC
* *
19183461 AAAGATGAAGATGAAGAC-GAAGGTGGAGAC
1 GAAGATGAAGACGAAG-CTGAAGGTGGAGAC
19183491 GAAGATGA
1 GAAGATGA
19183499 GCACGAGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.43, C:0.06, G:0.37, T:0.15
Consensus pattern (30 bp):
GAAGATGAAGACGAAGCTGAAGGTGGAGAC
Found at i:19186108 original size:27 final size:27
Alignment explanation
Indices: 19186077--19186130 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
19186067 GATCCGTCAA
*
19186077 CTGCATCTGCTACTCTTTCTTCCTCAC
1 CTGCATCTGCTACTCATTCTTCCTCAC
* *
19186104 CTGCATCTTCTTCTCATTCTTCCTCAC
1 CTGCATCTGCTACTCATTCTTCCTCAC
19186131 ATGTATCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.11, C:0.41, G:0.06, T:0.43
Consensus pattern (27 bp):
CTGCATCTGCTACTCATTCTTCCTCAC
Found at i:19196043 original size:46 final size:46
Alignment explanation
Indices: 19195862--19196043 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
19195852 TTTGACATGA
* * * * * *
19195862 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
19195908 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19195954 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19196000 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
19196044 AGAGCACACT
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.03
46 120 0.97
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:19201254 original size:46 final size:46
Alignment explanation
Indices: 19201073--19201254 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
19201063 TTTGACATGA
* * * * * * *
19201073 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
*** *
19201119 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
19201165 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
19201211 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
19201255 AGAGCACACT
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 119 0.97
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:19204200 original size:24 final size:25
Alignment explanation
Indices: 19204147--19204194 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
19204137 TTAGCCCTCT
* *
19204147 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
19204172 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
19204195 TGGAGCATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.38
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:19206218 original size:37 final size:37
Alignment explanation
Indices: 19206156--19206227 Score: 87
Period size: 37 Copynumber: 1.9 Consensus size: 37
19206146 ATTATTATGG
19206156 TATTGAATTGAATAAAAATTCGTGAATTATT-AGTGAT
1 TATTGAATTGAATAAAAATTCGTGAA-TATTGAGTGAT
*
19206193 TATTGATATTGAAT-AGAATAT-GTGAATATTGAGTG
1 TATTGA-ATTGAATAAAAAT-TCGTGAATATTGAGTG
19206228 GAAAATTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
36 4 0.13
37 19 0.61
38 8 0.26
ACGTcount: A:0.39, C:0.01, G:0.19, T:0.40
Consensus pattern (37 bp):
TATTGAATTGAATAAAAATTCGTGAATATTGAGTGAT
Found at i:19214150 original size:34 final size:34
Alignment explanation
Indices: 19214105--19214178 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 34
19214095 TTGCATCTAA
* *
19214105 ATGTTGTTTTAATATTG-TAGAAAAATGTATTATT
1 ATGTTGATTTAAAATTGTTA-AAAAATGTATTATT
19214139 ATGTTGATTTAAAATTGTTTAAAAAATGTATTATT
1 ATGTTGATTTAAAATTG-TTAAAAAATGTATTATT
19214174 ATGTT
1 ATGTT
19214179 ATGTTACACA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 15 0.42
35 19 0.53
36 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (34 bp):
ATGTTGATTTAAAATTGTTAAAAAATGTATTATT
Found at i:19220118 original size:16 final size:16
Alignment explanation
Indices: 19220083--19220123 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 16
19220073 ATGTGAATAA
19220083 TATTATTTAAAATTAC
1 TATTATTTAAAATTAC
19220099 TATT-TTTAAAATT--
1 TATTATTTAAAATTAC
19220112 TATTA-TTAAAAT
1 TATTATTTAAAAT
19220124 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 11 0.46
15 9 0.38
16 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTATTTAAAATTAC
Found at i:19220171 original size:22 final size:22
Alignment explanation
Indices: 19220131--19220186 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
19220121 AATAAAATTG
*
19220131 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
19220151 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
19220173 TATTAATAATTTAT
1 AAATAATAAATTAT
19220187 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:19221632 original size:46 final size:46
Alignment explanation
Indices: 19221565--19221657 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
19221555 GAGAGAGGTG
* *
19221565 TTAGTACATAACGTGTGAATAGTAATTGTGCTACCTCAGGCTTATA
1 TTAGTACATAACGTGTGAATAGTAATTGAGCTACCTAAGGCTTATA
*
19221611 TTAGTACATGACGTGTGAATAGTAATTGAGCTACCTAAGGCTTATA
1 TTAGTACATAACGTGTGAATAGTAATTGAGCTACCTAAGGCTTATA
19221657 T
1 T
19221658 GGCCCTTACC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (46 bp):
TTAGTACATAACGTGTGAATAGTAATTGAGCTACCTAAGGCTTATA
Found at i:19225297 original size:14 final size:14
Alignment explanation
Indices: 19225278--19225305 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19225268 TTTTGAATTT
19225278 TCAAAAAAATTAAA
1 TCAAAAAAATTAAA
19225292 TCAAAAAAATTAAA
1 TCAAAAAAATTAAA
19225306 AAAATAAATA
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:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
TCAAAAAAATTAAA
Found at i:19227578 original size:10 final size:10
Alignment explanation
Indices: 19227555--19227602 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
19227545 AATTTAGGAT
19227555 TTTAT-TTTA
1 TTTATCTTTA
*
19227564 ATTATCTTTA
1 TTTATCTTTA
19227574 TTTATCTTTA
1 TTTATCTTTA
* * *
19227584 ATTATATGTA
1 TTTATCTTTA
19227594 TTTATCTTT
1 TTTATCTTT
19227603 TTAGAATTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 4 0.13
10 26 0.87
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:19227583 original size:20 final size:20
Alignment explanation
Indices: 19227555--19227602 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
19227545 AATTTAGGAT
* *
19227555 TTTAT-TTTAATTATCTTTA
1 TTTATCTTTAATTATATGTA
19227574 TTTATCTTTAATTATATGTA
1 TTTATCTTTAATTATATGTA
19227594 TTTATCTTT
1 TTTATCTTT
19227603 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATCTTTAATTATATGTA
Found at i:19231062 original size:17 final size:15
Alignment explanation
Indices: 19231040--19231077 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 15
19231030 TTATCATTAA
19231040 TTTTATTATATGATTTT
1 TTTTATTATAT--TTTT
19231057 TTTTATTATATTTTT
1 TTTTATTATATTTTT
19231072 TTTTAT
1 TTTTAT
19231078 ATAATGTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 10 0.48
17 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTATTATATTTTT
Found at i:19231505 original size:29 final size:30
Alignment explanation
Indices: 19231434--19231505 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
19231424 GTTAATAATT
* * *
19231434 TATAAGAATTAGATCAAATCAAAATTTCATG
1 TATAA-AATTATATAAAATCAAAATTTCATA
*
19231465 TATAAAACTATATAAAATCAAAA-TTCATA
1 TATAAAATTATATAAAATCAAAATTTCATA
*
19231494 TATATAATTATA
1 TATAAAATTATA
19231506 CACTAAATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 15 0.43
30 15 0.43
31 5 0.14
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (30 bp):
TATAAAATTATATAAAATCAAAATTTCATA
Found at i:19237782 original size:30 final size:30
Alignment explanation
Indices: 19237711--19237783 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
19237701 GATATAAGAA
19237711 TTTAAAATAAATAGAAAAATAAAAATAAAT
1 TTTAAAATAAATAGAAAAATAAAAATAAAT
** * * * * *
19237741 AATATATTAAATAGCAATATAAAAATGAAT
1 TTTAAAATAAATAGAAAAATAAAAATAAAT
19237771 TTTAAAATAAATA
1 TTTAAAATAAATA
19237784 CTATAAAGTT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (30 bp):
TTTAAAATAAATAGAAAAATAAAAATAAAT
Found at i:19237806 original size:16 final size:15
Alignment explanation
Indices: 19237780--19237819 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
19237770 TTTTAAAATA
19237780 AATACTATAAAGTTAAT
1 AATA-TATAAAG-TAAT
19237797 AATATATAAAGTAAT
1 AATATATAAAGTAAT
19237812 ACATATAT
1 A-ATATAT
19237820 CAATTTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.23
16 13 0.59
17 4 0.18
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (15 bp):
AATATATAAAGTAAT
Found at i:19237975 original size:32 final size:32
Alignment explanation
Indices: 19237903--19237975 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 32
19237893 AATAAAAATG
* * *
19237903 ATAAAATAGGGTTTTTATAGGAAATAAATTAT
1 ATAAAATAGGATTTTTAAAGGAAATAAATTAC
19237935 ATATAAATA-GATTTTTAAAGGAAA-AATATTTAC
1 ATA-AAATAGGATTTTTAAAGGAAATAA-A-TTAC
19237968 ATAAAATA
1 ATAAAATA
19237976 ATATAACATC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
31 2 0.06
32 22 0.63
33 11 0.31
ACGTcount: A:0.52, C:0.01, G:0.11, T:0.36
Consensus pattern (32 bp):
ATAAAATAGGATTTTTAAAGGAAATAAATTAC
Found at i:19240107 original size:23 final size:23
Alignment explanation
Indices: 19240074--19240158 Score: 66
Period size: 23 Copynumber: 3.6 Consensus size: 23
19240064 TATTATTACT
19240074 TTTTAAA-TAATAAAATATATAA
1 TTTTAAATTAATAAAATATATAA
*
19240096 TTTTAAATTAATATTAATAT-TAA
1 TTTTAAATTAATA-AAATATATAA
** * *
19240119 CATTAAATTAATGTTAAAATGTATAC
1 TTTTAAATTAA---TAAAATATATAA
19240145 TTTTAACATTAATA
1 TTTTAA-ATTAATA
19240159 TAAGAAACCT
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
22 7 0.15
23 17 0.35
24 7 0.15
25 4 0.08
26 8 0.17
27 5 0.10
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (23 bp):
TTTTAAATTAATAAAATATATAA
Found at i:19240118 original size:17 final size:17
Alignment explanation
Indices: 19240087--19240136 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
19240077 TAAATAATAA
*
19240087 AATATATAATTTTAAATT
1 AATAT-TAATATTAAATT
19240105 AATATTAATATTAACATT
1 AATATTAATATTAA-ATT
*
19240123 AA-ATTAATGTTAAA
1 AATATTAATATTAAA
19240137 ATGTATACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 1 0.03
17 18 0.62
18 10 0.34
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
AATATTAATATTAAATT
Found at i:19240282 original size:24 final size:24
Alignment explanation
Indices: 19240255--19240306 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
19240245 TTACAATTTT
19240255 ATATTAA-ATATATAAAATAACAAA
1 ATATTAATATATA-AAAATAACAAA
* * *
19240279 ATATTACTATTTAAAAATAATAAA
1 ATATTAATATATAAAAATAACAAA
19240303 ATAT
1 ATAT
19240307 ATAACTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
ATATTAATATATAAAAATAACAAA
Found at i:19240870 original size:14 final size:14
Alignment explanation
Indices: 19240847--19240882 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
19240837 AAATGATAGC
*
19240847 AAAAATAGAGAGAA
1 AAAAAAAGAGAGAA
*
19240861 AAAAAAAGAGAGTA
1 AAAAAAAGAGAGAA
19240875 AAAAAAAG
1 AAAAAAAG
19240883 CAAGAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (14 bp):
AAAAAAAGAGAGAA
Found at i:19242309 original size:85 final size:84
Alignment explanation
Indices: 19242167--19242344 Score: 320
Period size: 85 Copynumber: 2.1 Consensus size: 84
19242157 GGCCGGCCAT
**
19242167 GAGCATGGGTGGACAAGATGTTATTTCTAAAACATGTCATAAACATGTTGGGGTAGTGCATTATG
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAACATGTCATAAACATGTTGGGGTAGTGCATTATG
19242232 TAAGGATTAATAAAATAAA
66 TAAGGATTAATAAAATAAA
19242251 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCT-AAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
19242316 GTAAGGATTAATAAAATAAA
65 GTAAGGATTAATAAAATAAA
*
19242336 GGGCATGGG
1 GAGCATGGG
19242345 CAATAAAATA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
84 26 0.29
85 64 0.71
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (84 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAACATGTCATAAACATGTTGGGGTAGTGCATTATG
TAAGGATTAATAAAATAAA
Found at i:19244590 original size:47 final size:47
Alignment explanation
Indices: 19244536--19244994 Score: 792
Period size: 47 Copynumber: 9.6 Consensus size: 47
19244526 GTATATTTGA
19244536 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
19244583 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
19244630 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
19244679 ATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
19244726 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
19244773 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
19244822 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
19244871 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
19244918 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
19244965 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
19244995 TCCCGAAGGG
Statistics
Matches: 394, Mismatches: 14, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
47 256 0.65
49 138 0.35
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Done.