Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold980
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: 107474
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Found at i:324 original size:52 final size:52
Alignment explanation
Indices: 261--444 Score: 205
Period size: 50 Copynumber: 3.6 Consensus size: 52
251 GATGAAATAA
* *
261 CGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAAT
* * * * *
313 CGAAGTTGGAGTATCCCCGATAAAG-AAAATTGGTG-TTTTGAAAATAAAAC
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAAT
* * * * **
363 CGGGGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAAG-AAT-AAAT
1 CGAGGTTGGAGTATCCCCGATTAT-GAAAAATTGGTGTTTTTGGAAATAAAAT
*
414 CGAGGTTGGAGTATCCCCGATTATGAGAAAT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAAT
445 CAATATTTGA
Statistics
Matches: 107, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
50 37 0.35
51 35 0.33
52 32 0.30
53 3 0.03
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (52 bp):
CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAAT
Found at i:375 original size:50 final size:50
Alignment explanation
Indices: 261--481 Score: 169
Period size: 50 Copynumber: 4.4 Consensus size: 50
251 GATGAAATAA
* *** * * *
261 CGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATAAAG-AAAATTAGTG-TTTTGAAAATAAAAC
* *
313 CGAAGTTGGAGTATCCCCGATAAAGAAAATTGGTGTTTTGAAAATAAAAC
1 CGAGGTTGGAGTATCCCCGATAAAGAAAATTAGTGTTTTGAAAATAAAAC
* * *** *
363 CGGGGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AAGAAT-AAAT
1 CGAGGTTGGAGTATCCCCGA-TAAAG-AAAATTAGTGTTTTGAA-AATAAAAC
* * * * * *
414 CGAGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTGAAAATAAAGC
1 CGAGGTTGGAGTATCCCCGATAAAGA-AAATTAGTGTTTTGAAAATAAAAC
*
464 CGGGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
482 TCGGAGGTAA
Statistics
Matches: 137, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
49 7 0.05
50 59 0.43
51 35 0.26
52 36 0.26
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (50 bp):
CGAGGTTGGAGTATCCCCGATAAAGAAAATTAGTGTTTTGAAAATAAAAC
Found at i:392 original size:51 final size:51
Alignment explanation
Indices: 261--655 Score: 200
Period size: 51 Copynumber: 7.6 Consensus size: 51
251 GATGAAATAA
* * * * * *
261 CGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATTATGGAAAATTAGTG-TTTTGAAAATAAAAC
* ** *
313 CGAAGTTGGAGTATCCCCGA-TAAAGAAAATTGGTGTTTTGAAAATAAAAC
1 CGAGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGAAAATAAAAC
* * * *
363 CGGGGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AAGAAT-AAAT
1 CGAGGTTGGAGTATCCCCGATTATGG-AAAATTAGTGTTTTGAA-AATAAAAC
* * * *
414 CGAGGTTGGAGTATCCCCGATTAT-GAGAAATCAAT-ATTTGAAAATAAAGC
1 CGAGGTTGGAGTATCCCCGATTATGGA-AAATTAGTGTTTTGAAAATAAAAC
* * ** ** * ** ** *
464 CGGGGTTGGAGTATCCCCTCGGAGGTAACG-AGGTTAGAGTATCCCCGATGAT-TAA-
1 CGAGGTTGGAGTAT-CCC-C-GA-TTATGGAAAATTAGTGT-T--TTGAAAATAAAAC
* * * * * *
519 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATTATGGAAAATTAGTG--TTTTGAAAATAAAAC
* * *
572 CG-GAGTTGGAGTATCCCCGATTATAGAAAATTAGTGTCTTGAAAATAAAAT
1 CGAG-GTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGAAAATAAAAC
* *
623 CG-GAGTTGG-GATATCCCCGATTGTGGAGAATTA
1 CGAG-GTTGGAG-TATCCCCGATTATGGAAAATTA
656 AGAAAACTCA
Statistics
Matches: 258, Mismatches: 63, Indels: 45
0.70 0.17 0.12
Matches are distributed among these distances:
49 7 0.03
50 55 0.21
51 87 0.34
52 45 0.17
53 37 0.14
54 6 0.02
55 16 0.06
56 1 0.00
57 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
CGAGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGAAAATAAAAC
Found at i:432 original size:101 final size:102
Alignment explanation
Indices: 264--481 Score: 280
Period size: 101 Copynumber: 2.1 Consensus size: 102
254 GAAATAACGA
* * **
264 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGAAGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAAGAAATAAAATCGAAGTTGGAGTATCC
*** *
329 CCGATAAAGA-AAATTGGTGTTTTGAAAATAAAACCGG
66 CCGATAAAGAGAAATCAAT-ATTTGAAAATAAAACCGG
* *
366 GGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAAG-AAT-AAATCGAGGTTGGAGTATC
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTAGTGTTTTAAGAAATAAAATCGAAGTTGGAGTATC
* * *
429 CCCGATTATGAGAAATCAATATTTGAAAATAAAGCCGG
65 CCCGATAAAGAGAAATCAATATTTGAAAATAAAACCGG
467 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
482 TCGGAGGTAA
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
101 57 0.57
102 27 0.27
103 16 0.16
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (102 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAAGAAATAAAATCGAAGTTGGAGTATCC
CCGATAAAGAGAAATCAATATTTGAAAATAAAACCGG
Found at i:528 original size:258 final size:260
Alignment explanation
Indices: 159--649 Score: 776
Period size: 258 Copynumber: 1.9 Consensus size: 260
149 AGAATAACGG
**
159 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGGGAATAAAGCCGGGGTTGAGTATCCCC
1 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAATAAAGCCGGGGTTGAGTATCCCC
* * * *
224 CGGAGGTAACGGGGTTGGAGTATCCTCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAA
66 CGGAGGTAACGAGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAA
* *
289 AATTGGTG-TTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGA-TAAAGAAAATTGGTGTTTT
131 AATTGGTGTTTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGAAAATTAGTGTCTT
*
352 GAAAATAAAACCGGGGTT-AGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAAGAATAAATCG
196 GAAAATAAAACCGGAGTTGAGA-TATCCCCGATTGTGGAAAAATTAGTGTTTTAAGAATAAATCG
416 A
260 A
*
417 GGTTGGAGTATCCCCGATTATGAGAAATCAATATTT-GAAAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAATAAAGCCGGGGTT-GAGTATCCC
* *
481 CTCGGAGGTAACGAGGTTAGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTGTGA
65 C-CGGAGGTAACGAGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGA
* *
545 AAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTGTC
129 AAAATTGGTGTTTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGAAAATTAGTGTC
* *
610 TTGAAAATAAAATCGGAGTTGGGATATCCCCGATTGTGGA
194 TTGAAAATAAAACCGGAGTTGAGATATCCCCGATTGTGGA
650 GAATTAAGAA
Statistics
Matches: 212, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
257 16 0.08
258 83 0.39
259 63 0.30
260 48 0.23
261 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (260 bp):
GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAATAAAGCCGGGGTTGAGTATCCCC
CGGAGGTAACGAGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAA
AATTGGTGTTTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGAAAATTAGTGTCTT
GAAAATAAAACCGGAGTTGAGATATCCCCGATTGTGGAAAAATTAGTGTTTTAAGAATAAATCGA
Found at i:530 original size:27 final size:28
Alignment explanation
Indices: 464--539 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 28
454 AAAATAAAGC
***
464 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAGGTAA
* * *
492 CGAGGTTAGAGTATCCCCGATGA-TTAA
1 CGGGGTTGGAGTATCCCCGATGAGGTAA
519 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
540 TGTGAAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAGGTAA
Found at i:7629 original size:28 final size:28
Alignment explanation
Indices: 7597--7664 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
7587 TTCTATTTCG
* *
7597 ATGTAGCTGCTTGTTTCTTCATGTGTCC
1 ATGTAGCTACTTGTTTCTTCACGTGTCC
*
7625 ATGTAGGTACTTGTTTCTTCACGTGTCC
1 ATGTAGCTACTTGTTTCTTCACGTGTCC
*
7653 ATGTGGCTACTT
1 ATGTAGCTACTT
7665 TAGATTTTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.44
Consensus pattern (28 bp):
ATGTAGCTACTTGTTTCTTCACGTGTCC
Found at i:8033 original size:22 final size:22
Alignment explanation
Indices: 8008--8057 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
7998 AATTTTTCGA
8008 TTTT-TTTATTAATTTATTAATT
1 TTTTATTTATTAA-TTATTAATT
* * *
8030 TTTTATTTTTTTATTATTACTT
1 TTTTATTTATTAATTATTAATT
8052 TTTTAT
1 TTTTAT
8058 GTTGAAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTATTTATTAATTATTAATT
Found at i:8662 original size:85 final size:85
Alignment explanation
Indices: 8566--8733 Score: 273
Period size: 85 Copynumber: 2.0 Consensus size: 85
8556 AAAAGTTTCC
* * * **
8566 AAGGTCAAAGCCGACAAGCAGACTTAAGGGTGAAGAAGTCTCCAGGGTTAAAGCCAATAGGTAAA
1 AAGGTCAAAGCCAACAAGCAAACTTAAGGGTGAAGAAGTCTCCAGGGTTAAAGCCAACAGACAAA
8631 CTTTAAATAAGACAGTCTCT
66 CTTTAAATAAGACAGTCTCT
*
8651 AAGGTCAAAGCCAACAAGCAAACTTAAGGGTGAAGAAGTCTCCAGGGTTAAAGCCAACAGACAAG
1 AAGGTCAAAGCCAACAAGCAAACTTAAGGGTGAAGAAGTCTCCAGGGTTAAAGCCAACAGACAAA
*
8716 CTTTAGATAAGACAGTCT
66 CTTTAAATAAGACAGTCT
8734 TCAGGGTTAA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.18
Consensus pattern (85 bp):
AAGGTCAAAGCCAACAAGCAAACTTAAGGGTGAAGAAGTCTCCAGGGTTAAAGCCAACAGACAAA
CTTTAAATAAGACAGTCTCT
Found at i:8800 original size:80 final size:82
Alignment explanation
Indices: 8685--9418 Score: 247
Period size: 85 Copynumber: 8.7 Consensus size: 82
8675 TAAGGGTGAA
* * * * *
8685 GAAGTCTCCAGGGTTAAAGCCAACAGACA-AGCTTTAGATAAGACAGTCTTCAGGGTTAAAACAG
1 GAAGTCTCCAAGGTCAAAGCCAACAAACAGA-CTTTAGATAAGACAGTCTCCAGGGTCAAAACAG
* * *
8749 ATAGGC-TTTA-GATGAG
65 ACAGGCATTGAGGATAAG
* * ** * *
8765 GAAGTCTCCAAGGTCAAAGCCGACAAACAGACTTTAGATGAGGTAGTCTCCAGGGTCAAAGCTGA
1 GAAGTCTCCAAGGTCAAAGCCAACAAACAGACTTTAGATAAGACAGTCTCCAGGGTCAAAACAGA
*
8830 CAGGCAGATTGAGGGTAAG
66 CAGGC--ATTGAGGATAAG
* * * * * *
8849 AAAGTCTCCAAGGTCAAAGCCAACAAGCAGACTTTAGATGATG-CAATCTCCAGGATCAAAACCG
1 GAAGTCTCCAAGGTCAAAGCCAACAAACAGACTTTAGAT-AAGACAGTCTCCAGGGTCAAAACAG
* * *
8913 ATAGGCAAACTGAGGGGT-AG
65 ACAGGC--ATTGA-GGATAAG
* * ** * * ** ** * *
8933 GAAAGTCTCTAGGGTCAAAGCCAACAGGCAAACTTTAGATGAGGTAGTCTCCAAAGTCAAAGCTG
1 G-AAGTCTCCAAGGTCAAAGCCAACAAACAGACTTTAGATAAGACAGTCTCCAGGGTCAAAACAG
* * *
8998 ACAGGTAAACTTTA-GATGAG
65 ACAGG--CA-TTGAGGATAAG
* ** ** * * * *
9018 GCAA-TCTCCAAAGTCAAAGCCAACAGGCAGACTAAAGGATAAGAAAGTCTTCAGGGTCAAAGCG
1 G-AAGTCTCCAAGGTCAAAGCCAACAAACAGACTTTA-GATAAGACAGTCTCCAGGGTCAAAACA
* *
9082 GACAGGCAGACTTTA-GATGAG
64 GACAGGC--A-TTGAGGATAAG
* * * ** * ** * *
9103 GTAGTCTCCAGGGTCAAAGCCGACAGGCAAACTGAAGGATAGGAAAGTCTCCAGGGTCAAAACCA
1 GAAGTCTCCAAGGTCAAAGCCAACAAACAGACTTTA-GATAAGACAGTCTCCAGGGTCAAAA-CA
* *
9168 -ATAGATAG-ACTGAAGGAT-AG
64 GACAG---GCATTG-AGGATAAG
* * ** ** ** ***
9188 GAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGGTAGTCTTTAGGGTCAAAGTTG
1 G-AAGTCTCCAAGGTCAAAGCCAACAAACAGACTTTAGATAAGACAGTCTCCAGGGTCAAAACAG
* * * *
9253 ATAGGTAGACTGAGGGGT-AG
65 ACAGG--CATTGA-GGATAAG
* * * * *
9273 GAAAGTCTCCAAGGTCAAAGCCAACAGAA-AAACTTTAGATGAGGCAGTCTCCAAGGTCAAAACC
1 G-AAGTCTCCAAGGTCAAAGCCAACA-AACAGACTTTAGATAAGACAGTCTCCAGGGTCAAAACA
**
9337 GACAGGCAGACTAAAGGAT-AG
64 GACAGGC--A-TTGAGGATAAG
* * * * * * *
9358 GAAAGTCT-CAAGGGTCAAAGCCGACAGATAGACTTTAGATGAGGCGGTCTCCGGGGTCAAA
1 G-AAGTCTCCAA-GGTCAAAGCCAACAAACAGACTTTAGATAAGACAGTCTCCAGGGTCAAA
9419 GTTGACAGGC
Statistics
Matches: 506, Mismatches: 113, Indels: 65
0.74 0.17 0.10
Matches are distributed among these distances:
80 56 0.11
81 1 0.00
82 1 0.00
83 3 0.01
84 104 0.21
85 302 0.60
86 38 0.08
88 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (82 bp):
GAAGTCTCCAAGGTCAAAGCCAACAAACAGACTTTAGATAAGACAGTCTCCAGGGTCAAAACAGA
CAGGCATTGAGGATAAG
Found at i:8802 original size:42 final size:42
Alignment explanation
Indices: 8558--9601 Score: 623
Period size: 42 Copynumber: 24.8 Consensus size: 42
8548 GATTGTGGAA
* * * * *
8558 AAGTTTCCAAGGTCAAAGCCGACAAGCAGACTTAAGGGTGAAG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTA-GATGAGG
* * * * * * * *
8601 AAGTCTCCAGGGTTAAAGCCAATAGGTAAACTTTAAAT-AAG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGG
* * * * * * *
8642 ACAGTCTCTAAGGTCAAAGCCAACAAGCAAACTTAAGGGTGAAG
1 A-AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTA-GATGAGG
* * * * *
8686 AAGTCTCCAGGGTTAAAGCCAACAGACA-AGCTTTAGAT-AAG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGA-CTTTAGATGAGG
* * * ** *
8727 ACAGTCTTCAGGGTTAAA----ACAGATAGGCTTTAGATGAGG
1 A-AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGG
**
8766 AAGTCTCCAAGGTCAAAGCCGACAAACAGACTTTAGATGAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGG
* * * * * * *
8808 TAGTCTCCAGGGTCAAAGCTGACAGGCAGA-TTGAGGGTAAGA
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTA-GATGAGG
* * *
8850 AAGTCTCCAAGGTCAAAGCCAACAAGCAGACTTTAGATGATGC
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGA-GG
* * * * **
8893 AA-TCTCC-AGGATCAAAACCGATAGGCAAAC-TGAGGGGTAGG
1 AAGTCTCCAAGG-TCAAAGCCGACAGGCAGACTTTAGATG-AGG
* * * *
8934 AAAGTCTCTAGGGTCAAAGCCAACAGGCAAACTTTAGATGAGG
1 -AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGG
* * * * *
8977 TAGTCTCCAAAGTCAAAGCTGACAGGTAAACTTTAGATGAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGG
* * ** * *
9019 CAA-TCTCCAAAGTCAAAGCCAACAGGCAGACTAAAGGATAAGA
1 -AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTA-GATGAGG
* * *
9062 AAGTCTTCAGGGTCAAAGCGGACAGGCAGACTTTAGATGAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGG
* * * **
9104 TAGTCTCCAGGGTCAAAGCCGACAGGCAAACTGAAGGAT-AGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTA-GATGAGG
* * * * ** **
9146 AAAGTCTCCAGGGTCAAAACCAATAGATAGACTGAAGGAT-AGG
1 -AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTA-GATGAGG
* *
9189 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGG
1 -AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGG
* ** * ** * * * **
9232 TAGTCTTTAGGGTCAAAGTTGATAGGTAGAC-TGAGGGGTAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATG-AGG
* ** *
9274 AAAGTCTCCAAGGTCAAAGCCAACAGAAAAACTTTAGATGAGG
1 -AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGG
* * **
9317 CAGTCTCCAAGGTCAAAACCGACAGGCAGACTAAAGGAT-AGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTA-GATGAGG
**
9359 AAAGTCT-CAAGGGTCAAAGCCGACAGATAGACTTTAGATGAGG
1 -AAGTCTCCAA-GGTCAAAGCCGACAGGCAGACTTTAGATGAGG
** ** ** *
9402 CGGTCTCCGGGGTCAAAGTTGACAGGCAAACTTTAGATGAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGG
* * * * * * *
9444 TAGTCTCTAAGGTCAAAGTCGATAGGTAGAC-TGAG-GGTAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATG-AGG
* * *
9485 AAAGTCTCCAGGGTCAAAGCCGATAGGCAAACTTTAGATGAGG
1 -AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGG
* *
9528 CAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTTAGATGAGG
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGG
* **
9570 TAGTCTTTAAGGTCAAAGCCGACAGGCAGACT
1 AAGTCTCCAAGGTCAAAGCCGACAGGCAGACT
9602 GAAGAATAGG
Statistics
Matches: 772, Mismatches: 191, Indels: 77
0.74 0.18 0.07
Matches are distributed among these distances:
38 27 0.03
39 3 0.00
40 1 0.00
41 28 0.04
42 454 0.59
43 244 0.32
44 15 0.02
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (42 bp):
AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGATGAGG
Found at i:8973 original size:85 final size:85
Alignment explanation
Indices: 8766--9603 Score: 586
Period size: 85 Copynumber: 9.9 Consensus size: 85
8756 TTAGATGAGG
* ** *
8766 AAGTCTCCAAGGTCAAAGCCGACAAACAGACTTTAGATGAGGTAGTCTCCAGGGTCAAAGCTGAC
1 AAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAGATGAGGTAGTCTCCAGGGTCAAAGCCGAC
* *
8831 AGGCAGATTGA-GGGTAAGA
66 AGGCAGACTGAGGGGTAGGA
* * * * * * *
8850 AAGTCTCCAAGGTCAAAGCCAACAAGCAGACTTTAGATGATGCAATCTCCAGGATCAAAACCGAT
1 AAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAGATGAGGTAGTCTCCAGGGTCAAAGCCGAC
*
8915 AGGCAAACTGAGGGGTAGGA
66 AGGCAGACTGAGGGGTAGGA
* * * ** *
8935 AAGTCTCTAGGGTCAAAGCCAACAGGCAAACTTTAGATGAGGTAGTCTCCAAAGTCAAAGCTGAC
1 AAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAGATGAGGTAGTCTCCAGGGTCAAAGCCGAC
* * * ** *
9000 AGGTAAACTTTAGATG-AGGC
66 AGGCAGAC-TGAGGGGTAGGA
* ** * ** * *
9020 AA-TCTCCAAAGTCAAAGCCAACAGGCAGACTAAAGGATAAGAAAGTCTTCAGGGTCAAAGCGGA
1 AAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTA-GATGAGGTAGTCTCCAGGGTCAAAGCCGA
* **
9084 CAGGCAGACTTTAGATG-AGG-
65 CAGGCAGAC-TGAGGGGTAGGA
* * * * ** * * *
9104 TAGTCTCCAGGGTCAAAGCCGACAGGCAAACTGAAGGAT-AGGAAAGTCTCCAGGGTCAAAACCA
1 AAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTA-GATGAGG-TAGTCTCCAGGGTCAAAGCCG
* ** * *
9168 ATAGATAGACTGAAGGATAGGA
64 ACAGGCAGACTGAGGGGTAGGA
* * * ** ** *
9190 AAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGGTAGTCTTTAGGGTCAAAGTTGAT
1 AAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAGATGAGGTAGTCTCCAGGGTCAAAGCCGAC
*
9255 AGGTAGACTGAGGGGTAGGA
66 AGGCAGACTGAGGGGTAGGA
** * * * *
9275 AAGTCTCCAAGGTCAAAGCCAACAGAAAAACTTTAGATGAGGCAGTCTCCAAGGTCAAAACCGAC
1 AAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAGATGAGGTAGTCTCCAGGGTCAAAGCCGAC
* * *
9340 AGGCAGACTAAAGGATAGGA
66 AGGCAGACTGAGGGGTAGGA
* ** ** * **
9360 AAGTCT-CAAGGGTCAAAGCCGACAGATAGACTTTAGATGAGGCGGTCTCCGGGGTCAAAGTTGA
1 AAGTCTCCAA-GGTCAAAGCCAACAGGCAGACTTTAGATGAGGTAGTCTCCAGGGTCAAAGCCGA
* * **
9424 CAGGCAAACTTTAGATG-AGG-
65 CAGGCAGAC-TGAGGGGTAGGA
* * * * * * * * *
9444 TAGTCTCTAAGGTCAAAGTCGATAGGTAGAC-TGAG-GGTAGGAAAGTCTCCAGGGTCAAAGCCG
1 AAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAGATG-AGG-TAGTCTCCAGGGTCAAAGCCG
* * * **
9507 ATAGGCAAACTTTAGATG-AGG-
64 ACAGGCAGAC-TGAGGGGTAGGA
* * * ** *
9528 CAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTTAGATGAGGTAGTCTTTAAGGTCAAAGCCGAC
1 AAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAGATGAGGTAGTCTCCAGGGTCAAAGCCGAC
9593 AGGCAGACTGA
66 AGGCAGACTGA
9604 AGAATAGGAA
Statistics
Matches: 602, Mismatches: 137, Indels: 31
0.78 0.18 0.04
Matches are distributed among these distances:
82 1 0.00
83 8 0.01
84 210 0.35
85 342 0.57
86 41 0.07
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (85 bp):
AAGTCTCCAAGGTCAAAGCCAACAGGCAGACTTTAGATGAGGTAGTCTCCAGGGTCAAAGCCGAC
AGGCAGACTGAGGGGTAGGA
Found at i:9542 original size:126 final size:126
Alignment explanation
Indices: 8754--9614 Score: 537
Period size: 127 Copynumber: 6.8 Consensus size: 126
8744 AACAGATAGG
* ** * * *
8754 CTTTAGATGAGGAAGTCTCCAAGGTCAAAGCCGACAAACAGACTTTAGATGAGGTAGTCTCCAGG
1 CTTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACAGGCAAACTTTAGATGAGGTAGTCTCTAAG
* * * * * *
8819 GTCAAAGCTGACAGGCAGATTGAGGGTAAGAAAGTCTCCAA-GGTCAAAGCCAACA-AGCAGA
66 GTCAAAGCCGACAGGCAGACTGAGGATAGGAAAGTCT-CAAGGGTCAAAGCCGACAGA-CAAA
* * * * * ** *
8880 CTTTAGATGATGCAATCTCC-AGGATCAAAACCGATAGGCAAAC-TGAGGGGTAGGAAAGTCTCT
1 CTTTAGATGAGGCAGTCTCCAAGG-TCAAAGCCGACAGGCAAACTTTAGATG-AGG-TAGTCTCT
* * * * * * * **
8943 AGGGTCAAAGCCAACAGGCAAACTTTA-GATGAGG-TAGTCTCCAA-AGTCAAAGCTGACAGGTA
63 AAGGTCAAAGCCGACAGGCAGAC-TGAGGAT-AGGAAAGTCT-CAAGGGTCAAAGCCGACAGACA
9005 AA
125 AA
* * * * ** * **
9007 CTTTAGATGAGGCAATCTCCAAAGTCAAAGCCAACAGGCAGACTAAAGGATAAGAAAGTCT-TCA
1 CTTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACAGGCAAACTTTA-GATGAGGTAGTCTCT-A
* * * * * *
9071 GGGTCAAAGCGGACAGGCAGACTTTA-GATGAGG-TAGTCTCCAGGGTCAAAGCCGACAGGCAAA
64 AGGTCAAAGCCGACAGGCAGAC-TGAGGAT-AGGAAAGTCTCAAGGGTCAAAGCCGACAGACAAA
** * * * * * ** * ** *
9134 CTGAAGGAT-AGGAAAGTCTCCAGGGTCAAAACCAATAGATAGACTGAAGGAT-AGGAAAGTCTC
1 CTTTA-GATGAGG-CAGTCTCCAAGGTCAAAGCCGACAGGCAAACTTTA-GATGAGG-TAGTCTC
* * * * ** ** * **
9197 CAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGG-TAGTCTTTAGGGTCAAAGTTGATAGGTA
62 TAAGGTCAAAGCCGACAGGCAGAC-TGAGGAT-AGGAAAGTCTCAAGGGTCAAAGCCGACAGACA
*
9260 GA
125 AA
* ** * * ** * *
9262 C-TGAGGGGTAGGAAAGTCTCCAAGGTCAAAGCCAACAGAAAAACTTTAGATGAGGCAGTCTCCA
1 CTTTAGATG-AGG-CAGTCTCCAAGGTCAAAGCCGACAGGCAAACTTTAGATGAGGTAGTCTCTA
* * * *
9326 AGGTCAAAACCGACAGGCAGACTAAAGGATAGGAAAGTCTCAAGGGTCAAAGCCGACAGATAGA
64 AGGTCAAAGCCGACAGGCAGACT-GAGGATAGGAAAGTCTCAAGGGTCAAAGCCGACAGACAAA
* ** **
9390 CTTTAGATGAGGCGGTCTCCGGGGTCAAAGTTGACAGGCAAACTTTAGATGAGGTAGTCTCTAAG
1 CTTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACAGGCAAACTTTAGATGAGGTAGTCTCTAAG
* * * * * * *
9455 GTCAAAGTCGATAGGTAGACTGAGGGTAGGAAAGTCTCCAGGGTCAAAGCCGATAGGCAAA
66 GTCAAAGCCGACAGGCAGACTGAGGATAGGAAAGTCTCAAGGGTCAAAGCCGACAGACAAA
* * *
9516 CTTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTTAGATGAGGTAGTCTTTAAG
1 CTTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACAGGCAAACTTTAGATGAGGTAGTCTCTAAG
*
9581 GTCAAAGCCGACAGGCAGACTGAAGAATAGGAAA
66 GTCAAAGCCGACAGGCAGACTG-AGGATAGGAAA
9615 AGTTCATATG
Statistics
Matches: 584, Mismatches: 128, Indels: 45
0.77 0.17 0.06
Matches are distributed among these distances:
125 7 0.01
126 148 0.25
127 255 0.44
128 169 0.29
129 5 0.01
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.18
Consensus pattern (126 bp):
CTTTAGATGAGGCAGTCTCCAAGGTCAAAGCCGACAGGCAAACTTTAGATGAGGTAGTCTCTAAG
GTCAAAGCCGACAGGCAGACTGAGGATAGGAAAGTCTCAAGGGTCAAAGCCGACAGACAAA
Found at i:15491 original size:21 final size:21
Alignment explanation
Indices: 15461--15503 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
15451 ACGACAGAAT
*
15461 ATTCAGTGCTGATCCATTATC
1 ATTCAATGCTGATCCATTATC
15482 ATTCAATGCTGATCCATTATC
1 ATTCAATGCTGATCCATTATC
15503 A
1 A
15504 ATGAGAACCT
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:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (21 bp):
ATTCAATGCTGATCCATTATC
Found at i:23412 original size:13 final size:14
Alignment explanation
Indices: 23394--23422 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23384 AATGAATCTA
23394 TTTATTA-TTTTAT
1 TTTATTATTTTTAT
23407 TTTATTATTTTTAT
1 TTTATTATTTTTAT
23421 TT
1 TT
23423 ACGAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTATTTTTAT
Found at i:24105 original size:12 final size:12
Alignment explanation
Indices: 24088--24126 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
24078 GGAAGTCAAA
24088 TTTTTATTTTAT
1 TTTTTATTTTAT
24100 TTTTTATTTT-T
1 TTTTTATTTTAT
*
24111 ATTTTA-TTTAT
1 TTTTTATTTTAT
24122 TTTTT
1 TTTTT
24127 TGCTTTGCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.12
11 11 0.46
12 10 0.42
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:24127 original size:12 final size:11
Alignment explanation
Indices: 24088--24127 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
24078 GGAAGTCAAA
24088 TTTTTATTTTAT
1 TTTTTATTTT-T
24100 TTTTTATTTTT
1 TTTTTATTTTT
*
24111 ATTTTATTTATT
1 TTTTTATTT-TT
24123 TTTTT
1 TTTTT
24128 GCTTTGCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:25337 original size:15 final size:15
Alignment explanation
Indices: 25312--25354 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
25302 TTTTATTAAT
25312 TTATTAGTTTTTTAT-
1 TTATTA-TTTTTTATA
*
25327 TTTTTCATTTTTTATA
1 TTATT-ATTTTTTATA
25343 TTATTATTTTTT
1 TTATTATTTTTT
25355 TATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (15 bp):
TTATTATTTTTTATA
Found at i:25354 original size:31 final size:35
Alignment explanation
Indices: 25292--25357 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 35
25282 TTTGATAAAA
25292 TTTTTCAATTTTTTATTAATTTATTAGTTTTTTAT
1 TTTTTCAATTTTTTATTAATTTATTAGTTTTTTAT
*
25327 TTTTTC-ATTTTTTA-T-A-TTATTATTTTTTTAT
1 TTTTTCAATTTTTTATTAATTTATTAGTTTTTTAT
25358 GTTGAAAACC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 14 0.47
32 1 0.03
33 1 0.03
34 8 0.27
35 6 0.20
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (35 bp):
TTTTTCAATTTTTTATTAATTTATTAGTTTTTTAT
Found at i:32686 original size:97 final size:96
Alignment explanation
Indices: 32518--32914 Score: 388
Period size: 97 Copynumber: 4.1 Consensus size: 96
32508 AACTCATACG
* * * * * * * * *
32518 GGCTTTTGGAAAAATTTAAGTGCCACTAGCTTGTATAGGCTTTTT-GGATGTCGCCGGCTCGTGC
1 GGCTTTTGGAAAAGTTTGAGTGCCACCAACTTGTGTGGGCTTTTTAGGA-GTCACC-ACTCATGC
* *
32582 GGCCTTTGAGAAAGGATACCA-TCAGCTCGTGTA
64 GGGCTTTGAGAAAGGATACCACT-AGCTCATGTA
* * ** *
32615 GGCTTTTGGAAAAGTTTGACTACCACCAACTTGTGTGGGCTTTTTAGGAACCACCATCTCGTGCG
1 GGCTTTTGGAAAAGTTTGAGTGCCACCAACTTGTGTGGGCTTTTTAGGAGTCACCA-CTCATGCG
32680 GGCTTTGAGAAAGGATGA-CACTAGCTCATGTA
65 GGCTTTGAGAAAGGAT-ACCACTAGCTCATGTA
* * * * * *
32712 GGTTTTTTGAAAAGGTTTAAGTGCCACTAGCTTGTGTGGGCTTTTTA-GATGTCGCCAGCTCATG
1 GGCTTTTGGAAAA-GTTTGAGTGCCACCAACTTGTGTGGGCTTTTTAGGA-GTCACCA-CTCATG
* * * *
32776 CAGGCTTTGAGAAAGGATGCCACCAACTCATGTA
63 CGGGCTTTGAGAAAGGATACCACTAGCTCATGTA
* * * *
32810 GGCTTTTGAAAAAGTTTGAGTGCCACCAATTTGTGTGGGCTTTTTAGGTGTCACCACTCATGTGG
1 GGCTTTTGGAAAAGTTTGAGTGCCACCAACTTGTGTGGGCTTTTTAGGAGTCACCACTCATGCGG
* * * *
32875 GCTTTAAGAAAGGATGCCACTAGCTCTTGTG
66 GCTTTGAGAAAGGATACCACTAGCTCATGTA
32906 GGCTTTTGG
1 GGCTTTTGG
32915 GTTACTCCAT
Statistics
Matches: 245, Mismatches: 47, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
96 41 0.17
97 122 0.50
98 82 0.33
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (96 bp):
GGCTTTTGGAAAAGTTTGAGTGCCACCAACTTGTGTGGGCTTTTTAGGAGTCACCACTCATGCGG
GCTTTGAGAAAGGATACCACTAGCTCATGTA
Found at i:56166 original size:22 final size:22
Alignment explanation
Indices: 56136--56179 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
56126 TTTTTTCCTC
56136 CTACGTTGCTGCTACCTTTTTT
1 CTACGTTGCTGCTACCTTTTTT
* *
56158 CTACTTTGCTGCTGCCTTTTTT
1 CTACGTTGCTGCTACCTTTTTT
56180 TGTTCGATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.07, C:0.27, G:0.14, T:0.52
Consensus pattern (22 bp):
CTACGTTGCTGCTACCTTTTTT
Found at i:57850 original size:43 final size:42
Alignment explanation
Indices: 57777--57896 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 42
57767 GTCGACAAGT
* *
57777 AAACAAAAAAG-AAAAGATTCTCCTAGGTCAAAGCCAACGGGC
1 AAACAAAAAAGTAAAAAAGTCTCC-AGGTCAAAGCCAACGGGC
*
57819 AAACAAAAAAGTAAAAAAGTCTCCAGAGTCAAACCCAACGGGC
1 AAACAAAAAAGTAAAAAAGTCTCCAG-GTCAAAGCCAACGGGC
* **
57862 AGACAAAAAAGTGGAAAAGTCTCCAGGGTCAAAGC
1 AAACAAAAAAGTAAAAAAGTCTCCA-GGTCAAAGC
57897 TGACAAGCAA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 13 0.19
43 54 0.79
44 1 0.01
ACGTcount: A:0.48, C:0.21, G:0.20, T:0.11
Consensus pattern (42 bp):
AAACAAAAAAGTAAAAAAGTCTCCAGGTCAAAGCCAACGGGC
Found at i:58148 original size:168 final size:169
Alignment explanation
Indices: 57881--58262 Score: 563
Period size: 168 Copynumber: 2.3 Consensus size: 169
57871 AGTGGAAAAG
* *
57881 TCTCCAGGGTCAAAGCTGACAAGCAAACTGAGGGTAGGAAAAGTCTTTAGGGTCAAAGCCGACAG
1 TCTCCAGGGTCAAAGCCGACAAGCAGACTGAGGGTAGGAAAAGTCTTTAGGGTCAAAGCCGACAG
* * * *
57946 GCAGACTTTAGATAAGACAGTCTCTAGGGTCAAAG-TCGACAGGCAAACTGAGGGTAGGAAAATC
66 ACAAACTTTAGATAAGACAGTCTCCAGAGTCAAAGCT-GACAGGCAAACTGAGGGTAGGAAAATC
* *
58010 TCCAAGGTCAAAGTCGACAGGTAGACTTTAGATGAGGCAA
130 TCCAAGGTCAAAGCCGACAAGTAGACTTTAGATGAGGCAA
58050 TCTCCAGGGTCAAAGCCGACAAGCAGACTGAGGGTAGGAAAA-TCTTTAGGGTCAAAGCCGACAG
1 TCTCCAGGGTCAAAGCCGACAAGCAGACTGAGGGTAGGAAAAGTCTTTAGGGTCAAAGCCGACAG
* * ** * * *
58114 ACAAACTTTAGATGAGGCAGTCTCCAGAGTCAAAGCTGGTAGGCAGATTGAGGGTAGGAAAGTCT
66 ACAAACTTTAGATAAGACAGTCTCCAGAGTCAAAGCTGACAGGCAAACTGAGGGTAGGAAAATCT
* * *
58179 CTAGGGTCAAAGCCGACAAGTAGACTTTAGATGAGGCAG
131 CCAAGGTCAAAGCCGACAAGTAGACTTTAGATGAGGCAA
*
58218 TCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG-AAAGTCT
1 TCTCCAGGGTCAAAGCCGACAAGCAGACTGAGGGTAGGAAAAGTCT
58263 CCATGGTTAA
Statistics
Matches: 192, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
167 3 0.02
168 148 0.77
169 41 0.21
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.18
Consensus pattern (169 bp):
TCTCCAGGGTCAAAGCCGACAAGCAGACTGAGGGTAGGAAAAGTCTTTAGGGTCAAAGCCGACAG
ACAAACTTTAGATAAGACAGTCTCCAGAGTCAAAGCTGACAGGCAAACTGAGGGTAGGAAAATCT
CCAAGGTCAAAGCCGACAAGTAGACTTTAGATGAGGCAA
Found at i:58262 original size:42 final size:42
Alignment explanation
Indices: 57877--58302 Score: 335
Period size: 42 Copynumber: 10.1 Consensus size: 42
57867 AAAAAGTGGA
* * *
57877 AAAGTCTCCAGGGTCAAAGCTGACAAGCAAACTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
** * * *
57919 AAAAGTCTTTAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAG
1 -AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGGTAGG
* * * *
57962 ACAGTCTCTAGGGTCAAAGTCGACAGGCAAACTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * * * *
58004 AAAATCTCCAAGGTCAAAGTCGACAGGTAGACTTTA-GATGAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* *
58047 CAA-TCTCCAGGGTCAAAGCCGACAAGCAGACTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* ** * * * *
58088 AAAATCTTTAGGGTCAAAGCCGACAGACAAACTTTA-GATGAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
* * * ** *
58131 -CAGTCTCCAGAGTCAAAGCTGGTAGGCAGATTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * * * *
58172 AAAGTCTCTAGGGTCAAAGCCGACAAGTAGACTTTA-GATGAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGGT-AGG
*
58215 -CAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
* * ** *
58256 AAAGTCTCCATGGTTAAAGATGACAAGCAGACTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
58298 AAAGT
1 AAAGT
58303 TCATATGGTC
Statistics
Matches: 295, Mismatches: 74, Indels: 29
0.74 0.19 0.07
Matches are distributed among these distances:
41 19 0.06
42 226 0.77
43 48 0.16
44 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (42 bp):
AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG
Found at i:58281 original size:84 final size:84
Alignment explanation
Indices: 57879--58288 Score: 507
Period size: 84 Copynumber: 4.9 Consensus size: 84
57869 AAAGTGGAAA
* * * *
57879 AGTCTCCAGGGTCAAAGCTGACAAGCAAACTGAGGGTAGGAAAAGTCTTTAGGGTCAAAGCCGAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGG-AAAGTCTCTAGGGTCAAAGCCGAC
* * *
57944 AGGCAGACTTTAGATAAGAC
65 AAGCAGACTTTAGATGAGGC
* * * * * * *
57964 AGTCTCTAGGGTCAAAGTCGACAGGCAAACTGAGGGTAGGAAAATCTCCAAGGTCAAAGTCGACA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACA
* *
58029 GGTAGACTTTAGATGAGGC
66 AGCAGACTTTAGATGAGGC
* * * *
58048 AATCTCCAGGGTCAAAGCCGACAAGCAGACTGAGGGTAGGAAAATCTTTAGGGTCAAAGCCGAC-
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACA
*
58112 AGACAAACTTTAGATGAGGC
66 AG-CAGACTTTAGATGAGGC
* * ** *
58132 AGTCTCCAGAGTCAAAGCTGGTAGGCAGATTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACA
*
58197 AGTAGACTTTAGATGAGGC
66 AGCAGACTTTAGATGAGGC
* * * **
58216 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGTCTCCATGGTTAAAGATGACA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACA
58281 AGCAGACT
66 AGCAGACT
58289 GAGGGTAGGA
Statistics
Matches: 277, Mismatches: 46, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
83 1 0.00
84 238 0.86
85 38 0.14
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.18
Consensus pattern (84 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACA
AGCAGACTTTAGATGAGGC
Found at i:67561 original size:20 final size:21
Alignment explanation
Indices: 67514--67566 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
67504 GCCAATGACC
*
67514 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
67535 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
67555 TGTATCGATACA
1 TGTATCGATACA
67567 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:67572 original size:13 final size:13
Alignment explanation
Indices: 67554--67578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67544 ACATTTGGTC
67554 ATGTATCGATACA
1 ATGTATCGATACA
67567 ATGTATCGATAC
1 ATGTATCGATAC
67579 TGTGCAATCT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:74326 original size:43 final size:41
Alignment explanation
Indices: 74262--74344 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 41
74252 CCAATTTCAT
*
74262 GCATGAATGCATGCATTGCCACCTAA-TCAATTTAGGTGGTA
1 GCATGAATGCATGCAATGCCACCTAAGTCAA-TTAGGTGGTA
74303 GCATGCAATGCAGTGCAATGCCACCTAAGTCAATTAGGTGGT
1 GCATG-AATGCA-TGCAATGCCACCTAAGTCAATTAGGTGGT
74345 TATAAATCCT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
41 5 0.13
42 6 0.16
43 23 0.61
44 4 0.11
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (41 bp):
GCATGAATGCATGCAATGCCACCTAAGTCAATTAGGTGGTA
Found at i:74409 original size:17 final size:15
Alignment explanation
Indices: 74374--74433 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
74364 CAGCTCTCTT
*
74374 TTTTTTTTAATT-TGA
1 TTTTTTTT-ATTATCA
*
74389 TTTTTTTAATTGATCA
1 TTTTTTTTATT-ATCA
*
74405 TTTTTTATTATTATTA
1 TTTTTT-TTATTATCA
*
74421 TTTTTTTGATTAT
1 TTTTTTTTATTAT
74434 TGATTTTTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
14 3 0.08
15 13 0.35
16 17 0.46
17 4 0.11
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.72
Consensus pattern (15 bp):
TTTTTTTTATTATCA
Found at i:76103 original size:160 final size:158
Alignment explanation
Indices: 75832--76154 Score: 490
Period size: 159 Copynumber: 2.0 Consensus size: 158
75822 GGAAATTTAG
*
75832 AACTTTTGTTTTCATTTTTTTTTTGTAATAGCAGATAACTTTTGAAGCTTCCTTTGGAAGTTTCG
1 AACTTTTGTTTTCATTTTTTTTTTGTAATAGCAGATAACTTTTGAAGCTTCCTTTGGAAGTTTCA
* *
75897 AACTATCTTTCCTTTTCATTTCCTCTAATCGAGTAAATTAGTTAGAA-TATTTT-TTTTAATGGT
66 AACTATCTTTCCTTCTCATTTCCTCTAATCGAGTAAATTAGTTAGAACTATTTTCTTTTAACGGT
**
75960 GAAGATCAATTTTTT-GTCTAATAGTCTC
131 GAAGATC-ATTTTTTAAACTAATAGTCTC
75988 AACTTTTGTTTTCATTTTTTTTTTTTTGTAATAGCAGATAACTTTTGAAGCTTCCTTTGGAAGTT
1 AACTTTTGTTTTCA---TTTTTTTTTTGTAATAGCAGATAACTTTTGAAGCTTCCTTTGGAAGTT
* *
76053 TCAAAACTATCTTTCCTTCTCATTTCCTCTAATCGAGTAAATTGGTTAGAATCTCTTTTTTCTTT
63 TC-AAACTATCTTTCCTTCTCATTTCCTCTAATCGAGTAAATTAGTTAGAA---CTATTTTCTTT
76118 TAACGGTGAAGATCATTTTTTAAACTAATAGTCTC
124 TAACGGTGAAGATCATTTTTTAAACTAATAGTCTC
76153 AA
1 AA
76155 TGTCTCCAAG
Statistics
Matches: 150, Mismatches: 7, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
156 14 0.09
159 50 0.33
160 45 0.30
164 12 0.08
165 29 0.19
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (158 bp):
AACTTTTGTTTTCATTTTTTTTTTGTAATAGCAGATAACTTTTGAAGCTTCCTTTGGAAGTTTCA
AACTATCTTTCCTTCTCATTTCCTCTAATCGAGTAAATTAGTTAGAACTATTTTCTTTTAACGGT
GAAGATCATTTTTTAAACTAATAGTCTC
Found at i:78701 original size:24 final size:23
Alignment explanation
Indices: 78648--78701 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
78638 AATAATGCAA
* *
78648 TTAAAATAAAAATCAAACTAATC
1 TTAAAATAAAAATAAAACTAACC
78671 TTAAAAATAAAAATAAAA-TCATACC
1 TT-AAAATAAAAATAAAACT-A-ACC
78696 TTAAAA
1 TTAAAA
78702 AAATTTTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 3 0.12
24 19 0.73
25 4 0.15
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (23 bp):
TTAAAATAAAAATAAAACTAACC
Found at i:78804 original size:73 final size:72
Alignment explanation
Indices: 78675--78972 Score: 229
Period size: 73 Copynumber: 4.1 Consensus size: 72
78665 CTAATCTTAA
* *
78675 AAATAAAAATAAAATCATA-CCTTAAAAAAATTTTAA-CATC-TATTATT-AACCCAAAAACAAA
1 AAATAAAAAT-AAATCATATCC-T-AAAAAA--TTAAGC-TCTTATAATTAAACCAAAAAACAAA
*
78736 TATAAA-TTTTAAC
60 TTTAAACTTTT-AC
* * * *
78749 AAATAAAAATAAATCATATCGTAAAAAATATAAGCTCATATAATTAAACAAAAAAATAAATTTAA
1 AAATAAAAATAAATCATATCCTAAAAAAT-TAAGCTCTTATAATTAAACCAAAAAACAAATTTAA
*
78814 ACTTTTAT
65 ACTTTTAC
* * * * * * *
78822 AAATAAAAATGAATCAT-GCTTTAAAAAATTTAAACTCTTATAATCATACCCAAAAAATAAATTT
1 AAATAAAAATAAATCATATC-CTAAAAAA-TTAAGCTCTTATAATTA-AACCAAAAAACAAATTT
78886 AAACTTTTAC
63 AAACTTTTAC
* * * *
78896 -AA-AAAAATTAAT-A-ATGCCTTAAAAATTGAAGCTCTTATAATTGAACCAAAATACAAATTTA
1 AAATAAAAATAAATCATAT-CCTAAAAAATT-AAGCTCTTATAATTAAACCAAAAAACAAATTTA
*
78957 AATTTTTAC
64 AACTTTTAC
78966 AAATAAA
1 AAATAAA
78973 CTATTTTAAA
Statistics
Matches: 183, Mismatches: 27, Indels: 30
0.76 0.11 0.12
Matches are distributed among these distances:
70 26 0.14
71 26 0.14
72 27 0.15
73 64 0.35
74 40 0.22
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (72 bp):
AAATAAAAATAAATCATATCCTAAAAAATTAAGCTCTTATAATTAAACCAAAAAACAAATTTAAA
CTTTTAC
Found at i:78936 original size:71 final size:71
Alignment explanation
Indices: 78770--78968 Score: 206
Period size: 70 Copynumber: 2.8 Consensus size: 71
78760 AATCATATCG
* * * * *
78770 TAAAAAATAT-AAGCTCATATAATTAAACAAAAAAATAAATTTAAACTTTTATAAATAAAAATGA
1 TAAAAAAT-TGAAACTCTTATAATTGAACCAAAAAATAAATTTAAACTTTTA-CAA-AAAAATGA
* *
78834 ATCATGCTT
63 ATAATGCCT
* * *
78843 TAAAAAATTTAAACTCTTATAATCAT-ACCCAAAAAATAAATTTAAACTTTTACAAAAAAATTAA
1 TAAAAAATTGAAACTCTTATAAT--TGAACCAAAAAATAAATTTAAACTTTTACAAAAAAATGAA
78907 TAATGCCT
64 TAATGCCT
* * * *
78915 T-AAAAATTGAAGCTCTTATAATTGAACCAAAATACAAATTTAAATTTTTACAAA
1 TAAAAAATTGAAACTCTTATAATTGAACCAAAAAATAAATTTAAACTTTTACAAA
78969 TAAACTATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
69 1 0.01
70 26 0.24
71 19 0.18
72 16 0.15
73 21 0.19
74 24 0.22
75 1 0.01
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (71 bp):
TAAAAAATTGAAACTCTTATAATTGAACCAAAAAATAAATTTAAACTTTTACAAAAAAATGAATA
ATGCCT
Found at i:80013 original size:24 final size:24
Alignment explanation
Indices: 79985--80052 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 24
79975 TTAAAGAAAT
79985 AAAAAAAATTAATTATTA-TTTTA
1 AAAAAAAATTAATTATTATTTTTA
* *
80008 ATAAAAAGATTAATAAATTTATTTTTA
1 A-AAAAAAATTAAT-TA-TTATTTTTA
80035 AAAAATATAATTAATTAT
1 AAAAA-A-AATTAATTAT
80053 AAAAATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
23 1 0.03
24 11 0.31
25 1 0.03
26 8 0.23
27 8 0.23
28 6 0.17
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (24 bp):
AAAAAAAATTAATTATTATTTTTA
Found at i:80308 original size:19 final size:18
Alignment explanation
Indices: 80255--80313 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
80245 TTCCTTTTAT
80255 TTTTTATAAATA-AAATAA
1 TTTTTA-AAATATAAATAA
* *
80273 TTTTGAAAATTTGAAATAA
1 TTTTTAAAATAT-AAATAA
*
80292 TTTTTAAAATAATAAATTA
1 TTTTTAAAAT-ATAAATAA
80311 TTT
1 TTT
80314 ATTTACATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
17 4 0.12
18 5 0.15
19 23 0.70
20 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTTTAAAATATAAATAA
Found at i:81035 original size:2 final size:2
Alignment explanation
Indices: 81023--81060 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
81013 GTTTCTTTGA
* *
81023 AT AT GT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
81061 GGGATCAGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:81773 original size:19 final size:19
Alignment explanation
Indices: 81749--81786 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
81739 CAACTGAACC
81749 CAAAACTGAATAACAGAAA
1 CAAAACTGAATAACAGAAA
*
81768 CAAAACTGAATAATAGAAA
1 CAAAACTGAATAACAGAAA
81787 TAACATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.63, C:0.13, G:0.11, T:0.13
Consensus pattern (19 bp):
CAAAACTGAATAACAGAAA
Found at i:85140 original size:22 final size:21
Alignment explanation
Indices: 85090--85150 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
85080 TTATTTATAT
85090 TTTTAAACTTAATAAAAGAAAAA
1 TTTTAAA-TTAAT-AAAGAAAAA
* *
85113 TATTAAATTAATAAAGATTAAA
1 TTTTAAATTAATAAAGA-AAAA
*
85135 TTTTAAAATATATAAA
1 TTTTAAATTA-ATAAA
85151 TTATAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 5 0.16
22 16 0.50
23 11 0.34
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (21 bp):
TTTTAAATTAATAAAGAAAAA
Found at i:85494 original size:30 final size:30
Alignment explanation
Indices: 85458--85514 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
85448 TAGTGCCCAA
85458 CCATAAACAACACTTTTGGGTTATCACCAT
1 CCATAAACAACACTTTTGGGTTATCACCAT
85488 CCATAAACAACACTTTTGGGTTATCAC
1 CCATAAACAACACTTTTGGGTTATCAC
85515 GGCAATCAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (30 bp):
CCATAAACAACACTTTTGGGTTATCACCAT
Found at i:88781 original size:9 final size:9
Alignment explanation
Indices: 88769--88797 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
88759 TAATTATCAA
88769 TTTTATTTT
1 TTTTATTTT
88778 TTTTA-TTT
1 TTTTATTTT
88786 TTTTATTTT
1 TTTTATTTT
88795 TTT
1 TTT
88798 CTTTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTATTTT
Found at i:88803 original size:9 final size:8
Alignment explanation
Indices: 88769--88803 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
88759 TAATTATCAA
88769 TTTTATTTT
1 TTTTA-TTT
88778 TTTTATTT
1 TTTTATTT
88786 TTTTATTT
1 TTTTATTT
*
88794 TTTTCTTT
1 TTTTATTT
88802 TT
1 TT
88804 AATAAAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 20 0.80
9 5 0.20
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:88830 original size:2 final size:2
Alignment explanation
Indices: 88823--88847 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88813 TTAAAATTTA
88823 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
88848 AATGGTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89843 original size:17 final size:17
Alignment explanation
Indices: 89787--89843 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
89777 ATATTTTTAG
89787 CATATA-TAATATACATA
1 CATATACTAATAT-CATA
* *
89804 TATATACTAAAATCATA
1 CATATACTAATATCATA
** *
89821 TTTATACTAATATTATA
1 CATATACTAATATCATA
89838 CATATA
1 CATATA
89844 TTTTTTGTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
17 27 0.84
18 5 0.16
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (17 bp):
CATATACTAATATCATA
Found at i:92366 original size:20 final size:19
Alignment explanation
Indices: 92311--92366 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
92301 AATCGACTTA
*
92311 AATTATTATT-TAAATA-AT
1 AATT-TTATTATAAATATTT
* *
92329 AATTTTATTATTATTATTT
1 AATTTTATTATAAATATTT
92348 AATTTTAATTATAAATATT
1 AATTTT-ATTATAAATATT
92367 AATATAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 5 0.17
18 8 0.27
19 7 0.23
20 10 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AATTTTATTATAAATATTT
Found at i:92368 original size:19 final size:18
Alignment explanation
Indices: 92311--92369 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
92301 AATCGACTTA
*
92311 AATTATTATT-TAAATAAT
1 AATT-TTATTATAAATATT
* *
92329 AATTTTATTATTATTATTT
1 AATTTTATTATAAATA-TT
92348 AATTTTAATTATAAATATT
1 AATTTT-ATTATAAATATT
92367 AAT
1 AAT
92370 ATAAAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
17 5 0.15
18 8 0.24
19 12 0.36
20 8 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTTATTATAAATATT
Found at i:92681 original size:21 final size:21
Alignment explanation
Indices: 92642--92691 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
92632 AATTAAGCAC
*
92642 CACATCAAAACGATTAAAAAT
1 CACATCAAAACGATCAAAAAT
* * *
92663 CACATCAACATGATCAAAAGT
1 CACATCAAAACGATCAAAAAT
*
92684 CACGTCAA
1 CACATCAA
92692 TAGATTACCG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.50, C:0.24, G:0.08, T:0.18
Consensus pattern (21 bp):
CACATCAAAACGATCAAAAAT
Found at i:94298 original size:67 final size:66
Alignment explanation
Indices: 94190--94324 Score: 200
Period size: 67 Copynumber: 2.0 Consensus size: 66
94180 CCATATCCTA
*
94190 TGTCACCCAGATAATGGTAGTATCCAACATTAGTATCCAAGGCAGGAAGTT-AAAATTTTTTCTA
1 TGTCACCCAGATAATGGTAGGATCCAACATTAGTATCCAAGGCAGGAAGTTCAAAA--TTTTCTA
94254 AGT
64 AGT
* **
94257 TGTCACCCAGATAATGGTAGGATCCGATGTTAGTATCCAAGGCAGGAAGTTGCAAAATTTTCTAA
1 TGTCACCCAGATAATGGTAGGATCCAACATTAGTATCCAAGGCAGGAAGTT-CAAAATTTTCTAA
94322 GT
65 GT
94324 T
1 T
94325 TCTTCATACG
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
67 58 0.94
69 4 0.06
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (66 bp):
TGTCACCCAGATAATGGTAGGATCCAACATTAGTATCCAAGGCAGGAAGTTCAAAATTTTCTAAG
T
Found at i:96944 original size:17 final size:17
Alignment explanation
Indices: 96922--96954 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
96912 TAGAACCACC
96922 TTATTATGTTTATAATA
1 TTATTATGTTTATAATA
96939 TTATTATGTTTATAAT
1 TTATTATGTTTATAAT
96955 TTTAACAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (17 bp):
TTATTATGTTTATAATA
Found at i:98122 original size:41 final size:41
Alignment explanation
Indices: 98077--98167 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
98067 TCTAGACATA
* * *
98077 TAAAAAGCTCAAGACTCTATTTACC-TAGAATCTAATCTGG
1 TAAAAAGCTCAAGACTCCATTTACCACAGAAGCTAATCTGG
* * *
98117 TTAAAATGGTCCAGACTCCATTTACCACAGAAGCTAATCTGG
1 -TAAAAAGCTCAAGACTCCATTTACCACAGAAGCTAATCTGG
*
98159 TAAACAGCT
1 TAAAAAGCT
98168 TGAAAAATTA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
41 27 0.68
42 13 0.32
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (41 bp):
TAAAAAGCTCAAGACTCCATTTACCACAGAAGCTAATCTGG
Found at i:99399 original size:32 final size:32
Alignment explanation
Indices: 99358--99424 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
99348 AAAAATTGCT
*
99358 CACCTAACACACCACCTATTATTCTCACATAA
1 CACCTAACACACCACCTAATATTCTCACATAA
*
99390 CACCTAACACACCACCTAATATTCTCACCTAA
1 CACCTAACACACCACCTAATATTCTCACATAA
99422 CAC
1 CAC
99425 ACCAACACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.22
Consensus pattern (32 bp):
CACCTAACACACCACCTAATATTCTCACATAA
Found at i:99435 original size:15 final size:16
Alignment explanation
Indices: 99415--99447 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
99405 CTAATATTCT
99415 CACCTAACACACC-AA
1 CACCTAACACACCTAA
*
99430 CACCTAACGCACCTAA
1 CACCTAACACACCTAA
99446 CA
1 CA
99448 TACAAAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.42, C:0.45, G:0.03, T:0.09
Consensus pattern (16 bp):
CACCTAACACACCTAA
Done.