Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 13 of 318
Found at i:4776817 original size:107 final size:105
Alignment explanation
Indices: 4776368--4776864 Score: 526
Period size: 107 Copynumber: 4.6 Consensus size: 105
4776358 AATATATATA
* * * **
4776368 TTTTTTTGCACTGGGTGCCGACCATTGACAGGCTAGCACCCAAAAAAATTTTTTTTTTGGAACTC
1 TTTTTTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC----AAA-TTTTTTTTTAAAACTC
* *
4776433 GTA-TTTTCGAGAG-AAAAAAAA--TTGAAAAAAAAATTTAAGTTTT
61 GTATTTTTAGAGAGAAAAAAAAATTTTGAAAAAAAAATTGAA--TTT
* * *****
4776476 TTTTTTTGTACTGGGTGCTGGCCATTGATAGGCCAGCACCCAAATTTTAAAAAAAAAAACTCGTA
1 TTTTTTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTT--TTTTTAAAACTCGTA
*
4776541 TTTTTTA-AGAGCAAAAAAAAAATTTCG-AAAAAAAATT-AA--T
64 -TTTTTAGAGAG--AAAAAAAAATTTTGAAAAAAAAATTGAATTT
* * *** *
4776581 TTTTTTGGTACTGAGTGCCGGCCATTGACAGGCCAGCATCCCAAATTTTTTAAAAAAAAAATCGT
1 TTTTTTTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCCAAATTTTTT--TTTAAAACTCGT
* * *
4776646 GTTTTTAGAGAGCAAAAAAAATTTTGAAAAAAAAATTGCATTT
63 ATTTTTAGAGAGAAAAAAAAATTTTGAAAAAAAAATTGAATTT
4776689 TTTTTTCTGGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTAAAACTCGTA
1 TTTTTT-T-GTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTAAAACTCGTA
*
4776754 TTTTTAGAGAGTAAAAAAAAATTTTGAAAAAAAAGTTGAATTT
64 TTTTTAGAGAG-AAAAAAAAATTTTGAAAAAAAAATTGAATTT
*
4776797 TTTTTATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTAAAACTCGTAT
1 TTTTT-TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTAAAACTCGTAT
4776862 TTT
65 TTT
4776865 GTATACCAAT
Statistics
Matches: 332, Mismatches: 36, Indels: 43
0.81 0.09 0.10
Matches are distributed among these distances:
103 4 0.01
104 15 0.05
105 59 0.18
106 30 0.09
107 82 0.25
108 77 0.23
109 23 0.07
110 40 0.12
111 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (105 bp):
TTTTTTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTAAAACTCGTATT
TTTAGAGAGAAAAAAAAATTTTGAAAAAAAAATTGAATTT
Found at i:4783616 original size:11 final size:11
Alignment explanation
Indices: 4783600--4783633 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4783590 CGGGCCTGCC
4783600 TATATTAATTT
1 TATATTAATTT
*
4783611 TATATTATTTT
1 TATATTAATTT
4783622 TATA-TAATTT
1 TATATTAATTT
4783632 TA
1 TA
4783634 AAATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATTAATTT
Found at i:4783872 original size:22 final size:22
Alignment explanation
Indices: 4783847--4783888 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4783837 TATCCAAACA
4783847 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
4783869 ATAATAGTAAAATAGTAGCA
1 ATAACAACAAAATAGTAGCA
4783889 GAATAGGTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:4784337 original size:15 final size:15
Alignment explanation
Indices: 4784311--4784353 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
4784301 TTTACTAAAG
4784311 TTTATGAAAAAA-AAT
1 TTTAT-AAAAAATAAT
4784326 TGTTATAAAAAATAAT
1 T-TTATAAAAAATAAT
*
4784342 TTAATAAAAAAT
1 TTTATAAAAAAT
4784354 CTATATATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 17 0.68
16 8 0.32
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (15 bp):
TTTATAAAAAATAAT
Found at i:4786108 original size:29 final size:29
Alignment explanation
Indices: 4786076--4786213 Score: 134
Period size: 29 Copynumber: 4.5 Consensus size: 29
4786066 TATTAATCTG
4786076 TTTAAAATTATAAAAAATTAATTTAAACA
1 TTTAAAATTATAAAAAATTAATTTAAACA
* * *
4786105 TTTAAAATTAT-AAATATATAAATTAAAAA
1 TTTAAAATTATAAAAAAT-TAATTTAAACA
* * *
4786134 TTTTAAATTAATAAAAATAAAATTATATATTAATCTG
1 TTTAAAATT-AT---AA-AAAATTA-AT-TTAAAC-A
4786171 TTTAAAATTATAAAAAATTAATTTAAACA
1 TTTAAAATTATAAAAAATTAATTTAAACA
4786200 TTTAAAATTATAAA
1 TTTAAAATTATAAA
4786214 TATATAAATT
Statistics
Matches: 87, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
28 5 0.06
29 42 0.48
30 7 0.08
31 2 0.02
32 7 0.08
33 2 0.02
34 3 0.03
35 5 0.06
36 6 0.07
37 8 0.09
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (29 bp):
TTTAAAATTATAAAAAATTAATTTAAACA
Found at i:4786127 original size:15 final size:15
Alignment explanation
Indices: 4786109--4786160 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
4786099 TAAACATTTA
4786109 AAATTATAAATATAT
1 AAATTATAAATATAT
* *
4786124 AAATTAAAAAT-TTT
1 AAATTATAAATATAT
*
4786138 AAATTAATAAAAATA-
1 AAATT-ATAAATATAT
4786153 AAATTATA
1 AAATTATA
4786161 TATTAATCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
14 10 0.33
15 19 0.63
16 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATTATAAATATAT
Found at i:4790779 original size:46 final size:46
Alignment explanation
Indices: 4790715--4791067 Score: 391
Period size: 46 Copynumber: 7.3 Consensus size: 46
4790705 ACCCAAGTGG
* *
4790715 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* ** *
4790761 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTCAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
4790807 AAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* **
4790859 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
4790905 AAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
4790957 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
** *
4791003 AAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
*
4791055 AGAGTGATAAGTG
1 AAAGTGATAAGTG
4791068 GCTACACTTA
Statistics
Matches: 261, Mismatches: 28, Indels: 36
0.80 0.09 0.11
Matches are distributed among these distances:
46 137 0.52
52 124 0.48
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
Found at i:4790819 original size:52 final size:51
Alignment explanation
Indices: 4790761--4791067 Score: 373
Period size: 52 Copynumber: 6.1 Consensus size: 51
4790751 ATCAAGTGAC
* * *
4790761 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTCACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
4790813 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
4790859 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
4790911 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
4790957 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
4791008 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA-AGTG
4791061 ATAAGTG
1 A-AAGTG
4791068 GCTACACTTA
Statistics
Matches: 220, Mismatches: 21, Indels: 27
0.82 0.08 0.10
Matches are distributed among these distances:
46 85 0.39
52 126 0.57
53 9 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:4790870 original size:98 final size:98
Alignment explanation
Indices: 4790708--4791068 Score: 623
Period size: 98 Copynumber: 3.7 Consensus size: 98
4790698 AGTTAGGACC
4790708 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
*
4790773 GGTAGCTTTAGCTACACTTATCTGATCAAGTCA
66 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
4790806 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
4790871 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
66 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
4790904 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
* **
4790969 GATAGCTTCGGCTACACTTATCTGATCAAGTGA
66 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
* * ** * * *
4791002 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTGATAAGT
1 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
4791067 GG
66 GG
4791069 CTACACTTAT
Statistics
Matches: 251, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 251 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
Found at i:4791074 original size:37 final size:37
Alignment explanation
Indices: 4791031--4791213 Score: 298
Period size: 37 Copynumber: 5.0 Consensus size: 37
4791021 GATAGCTTTA
* *
4791031 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4791068 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4791105 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4791142 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
4791179 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4791214 ATCATACGTA
Statistics
Matches: 138, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 123 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:4792544 original size:58 final size:58
Alignment explanation
Indices: 4792467--4792634 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
4792457 CATGTGAACA
4792467 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
4792526 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
4792582 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
4792633 TG
1 TG
4792635 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:4792576 original size:28 final size:28
Alignment explanation
Indices: 4792486--4792576 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
4792476 GTGATTCCGT
4792486 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
4792514 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
4792543 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
4792572 GTAAG
1 GTAAG
4792577 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:4792599 original size:49 final size:49
Alignment explanation
Indices: 4792527--4792669 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
4792517 AGTGATATGT
* *
4792527 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
4792576 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
4792625 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
4792670 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:4794426 original size:46 final size:46
Alignment explanation
Indices: 4794362--4794714 Score: 391
Period size: 46 Copynumber: 7.3 Consensus size: 46
4794352 ACCCAAGTGG
* *
4794362 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* ** *
4794408 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTCAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
4794454 AAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* **
4794506 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
4794552 AAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
4794604 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
** *
4794650 AAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
*
4794702 AGAGTGATAAGTG
1 AAAGTGATAAGTG
4794715 GCTACACTTA
Statistics
Matches: 261, Mismatches: 28, Indels: 36
0.80 0.09 0.11
Matches are distributed among these distances:
46 137 0.52
52 124 0.48
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
Found at i:4794466 original size:52 final size:51
Alignment explanation
Indices: 4794408--4794714 Score: 373
Period size: 52 Copynumber: 6.1 Consensus size: 51
4794398 ATCAAGTGAC
* * *
4794408 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTCACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
4794460 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
4794506 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
4794558 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
4794604 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
4794655 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA-AGTG
4794708 ATAAGTG
1 A-AAGTG
4794715 GCTACACTTA
Statistics
Matches: 220, Mismatches: 21, Indels: 27
0.82 0.08 0.10
Matches are distributed among these distances:
46 85 0.39
52 126 0.57
53 9 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:4794517 original size:98 final size:98
Alignment explanation
Indices: 4794355--4794715 Score: 623
Period size: 98 Copynumber: 3.7 Consensus size: 98
4794345 AGTTAGGACC
4794355 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
*
4794420 GGTAGCTTTAGCTACACTTATCTGATCAAGTCA
66 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
4794453 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
4794518 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
66 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
4794551 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
* **
4794616 GATAGCTTCGGCTACACTTATCTGATCAAGTGA
66 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
* * ** * * *
4794649 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTGATAAGT
1 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
4794714 GG
66 GG
4794716 CTACACTTAT
Statistics
Matches: 251, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 251 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
Found at i:4794721 original size:37 final size:37
Alignment explanation
Indices: 4794678--4794860 Score: 298
Period size: 37 Copynumber: 5.0 Consensus size: 37
4794668 GATAGCTTTA
* *
4794678 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4794715 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4794752 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4794789 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
4794826 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4794861 ATCATACGTA
Statistics
Matches: 138, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 123 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:4801792 original size:60 final size:60
Alignment explanation
Indices: 4801694--4801854 Score: 252
Period size: 60 Copynumber: 2.7 Consensus size: 60
4801684 AGGAAAAGGG
*
4801694 AAGCCAGCGGGTGGCACTCATGTGAACGTTGG-GCGCAAAGGAGTTGGAGTGAACACGGGA
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAG-GCAAAGGAGTTGGAGTGAACACGGGA
* * *
4801754 AAGCCAGGGGGTGGCACTCATGTGAATGTTGGAGGCAAAGGAGTTGGGGTGAACACTGGA
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGGAGTTGGAGTGAACACGGGA
* *
4801814 AAGCCAGGAGGTGGCACCCATGTGAACGTTGGAGGCAAAGG
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGG
4801855 TGGAGGAGTA
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
60 92 0.99
61 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.40, T:0.16
Consensus pattern (60 bp):
AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGGAGTTGGAGTGAACACGGGA
Found at i:4804651 original size:18 final size:18
Alignment explanation
Indices: 4804628--4804720 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
4804618 TACGACCGTT
*
4804628 TACGGTACTATTTACGTA
1 TACGGTACTATTCACGTA
4804646 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
4804664 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
**
4804682 TACGACACTATTCACGTA
1 TACGGTACTATTCACGTA
*
4804700 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
4804718 TAC
1 TAC
4804721 AGTAGTTGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 69 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:4812086 original size:17 final size:17
Alignment explanation
Indices: 4812065--4812098 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4812055 GAAAAAAAGT
*
4812065 AAAAAATAAATAAAATAG
1 AAAAAA-AACTAAAATAG
4812083 AAAAAAAACTAAAATA
1 AAAAAAAACTAAAATA
4812099 TGATAACCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAAAAACTAAAATAG
Found at i:4815764 original size:10 final size:10
Alignment explanation
Indices: 4815749--4815773 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4815739 AATGGAAAAT
4815749 TTTTTTATAA
1 TTTTTTATAA
4815759 TTTTTTATAA
1 TTTTTTATAA
4815769 TTTTT
1 TTTTT
4815774 AAATTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:4817949 original size:30 final size:30
Alignment explanation
Indices: 4817915--4817974 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
4817905 TTCCCGAGTC
4817915 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
4817945 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
4817975 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:4818447 original size:47 final size:46
Alignment explanation
Indices: 4818391--4818525 Score: 207
Period size: 47 Copynumber: 2.9 Consensus size: 46
4818381 TAGGATGGTT
* *
4818391 GAACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT
1 GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* *
4818437 GAAATGTCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGC
1 G-AACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* *
4818484 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4818526 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 38 0.47
47 42 0.52
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:4820367 original size:41 final size:41
Alignment explanation
Indices: 4820201--4820356 Score: 285
Period size: 41 Copynumber: 3.8 Consensus size: 41
4820191 TTTATCATTA
* *
4820201 GTGACATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
4820242 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
4820283 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
4820324 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
4820357 AAGAGCCGGT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:4834386 original size:52 final size:52
Alignment explanation
Indices: 4834315--4834558 Score: 356
Period size: 52 Copynumber: 4.8 Consensus size: 52
4834305 ATCAAGTGAC
** ** *
4834315 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
4834367 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
4834419 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
** ** *
4834465 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
4834517 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAG
1 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAG
4834559 AAACAAAGTG
Statistics
Matches: 171, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
46 41 0.24
52 130 0.76
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (52 bp):
AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
Found at i:4834437 original size:98 final size:98
Alignment explanation
Indices: 4834367--4834571 Score: 293
Period size: 98 Copynumber: 2.1 Consensus size: 98
4834357 TGACAAGTGG
* *
4834367 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
4834432 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
** *
4834465 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * * **
4834530 ATAGCTTCGGCTATACTTATCTGATCAAGAAAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
4834563 AAAGTGATA
1 AAAGTGATA
4834572 GGTGGCTACA
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 100 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (98 bp):
AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
ATAGCTACGACTATACTGATCTGATCAAGTGAC
Found at i:4834588 original size:37 final size:37
Alignment explanation
Indices: 4834538--4834667 Score: 242
Period size: 37 Copynumber: 3.5 Consensus size: 37
4834528 TAATAGCTTC
*
4834538 GGCTATACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
*
4834575 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
4834612 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
4834649 GGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCA
4834668 GGGACAAGTG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
Found at i:4834659 original size:74 final size:72
Alignment explanation
Indices: 4834538--4834684 Score: 249
Period size: 74 Copynumber: 2.0 Consensus size: 72
4834528 TAATAGCTTC
*
4834538 GGCTATACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCTGATCAAGAAACAAA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCTGATC-AGAAAC-AA
4834603 GTGATAAGT
64 GTGATAAGT
**
4834612 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCTGATCAGGGACAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCTGATCAGAAACAAGT
4834677 GATAAGT
66 GATAAGT
4834684 G
1 G
4834685 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
72 12 0.17
73 4 0.06
74 54 0.77
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (72 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCTGATCAGAAACAAGT
GATAAGT
Found at i:4838460 original size:30 final size:30
Alignment explanation
Indices: 4838426--4838485 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
4838416 TTCCCGAGTC
4838426 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
4838456 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
4838486 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:4838957 original size:47 final size:46
Alignment explanation
Indices: 4838900--4839035 Score: 227
Period size: 47 Copynumber: 2.9 Consensus size: 46
4838890 CTAGGATGGT
*
4838900 TGAACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
1 TGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
*
4838946 TGAAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
1 TG-AACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
* *
4838993 TGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4839036 GCGGGTTACA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
46 40 0.48
47 44 0.52
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
Found at i:4840952 original size:18 final size:19
Alignment explanation
Indices: 4840929--4840967 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4840919 TACAAATACA
*
4840929 AACATT-ACATAATTATTT
1 AACATTCACATAATAATTT
*
4840947 AACATTCACATCATAATTT
1 AACATTCACATAATAATTT
4840966 AA
1 AA
4840968 TCATATTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (19 bp):
AACATTCACATAATAATTT
Found at i:4841515 original size:31 final size:31
Alignment explanation
Indices: 4841477--4841539 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
4841467 GTATTTACAA
* *
4841477 CATATTTCACTTTATATTTTCAATTCATTAT
1 CATATTTCACATTATATTTTCAATTCACTAT
*
4841508 CATATTTCACATTCTATTTTCAATTCACTAT
1 CATATTTCACATTATATTTTCAATTCACTAT
4841539 C
1 C
4841540 TCATATTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.51
Consensus pattern (31 bp):
CATATTTCACATTATATTTTCAATTCACTAT
Found at i:4841733 original size:27 final size:25
Alignment explanation
Indices: 4841669--4841726 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
4841659 ATGTACTAAA
* *
4841669 CAGATAGCAATAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAATAAT
4841694 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAATAAT
*
4841719 CAAAGAGC
1 CAGAGAGC
4841727 GCGCTAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAGAGCACTAACGTGCTAATAAT
Found at i:4842668 original size:7 final size:7
Alignment explanation
Indices: 4842646--4842678 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
4842636 TTATTATATA
4842646 ATATAAT
1 ATATAAT
4842653 ATA-ACAT
1 ATATA-AT
4842660 ATATAAT
1 ATATAAT
4842667 ATATAAT
1 ATATAAT
4842674 ATATA
1 ATATA
4842679 CTTAACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.04
7 22 0.92
8 1 0.04
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (7 bp):
ATATAAT
Found at i:4842712 original size:29 final size:28
Alignment explanation
Indices: 4842663--4842717 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
4842653 ATAACATATA
*
4842663 TAATATATAATATATACTTAACTTTTAAG
1 TAATATATAAGATATACTTAA-TTTTAAG
*
4842692 TAATATTATAAGATAT-TTTAATTTTA
1 TAATA-TATAAGATATACTTAATTTTA
4842718 GATTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.22
29 9 0.39
30 9 0.39
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (28 bp):
TAATATATAAGATATACTTAATTTTAAG
Found at i:4861187 original size:5 final size:5
Alignment explanation
Indices: 4861177--4861202 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4861167 TCGAGGCCCG
4861177 TCCCA TCCCA TCCCA TCCCA TCCCA T
1 TCCCA TCCCA TCCCA TCCCA TCCCA T
4861203 GAGTTGTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.58, G:0.00, T:0.23
Consensus pattern (5 bp):
TCCCA
Found at i:4863915 original size:31 final size:31
Alignment explanation
Indices: 4863880--4863942 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
4863870 TTTTTAAATG
4863880 TATACA-ATTGAATCAAAATTAAAATTTTATA
1 TATACATA-TGAATCAAAATTAAAATTTTATA
* *
4863911 TATACATATGAATCACAATTCAAATTTTATA
1 TATACATATGAATCAAAATTAAAATTTTATA
4863942 T
1 T
4863943 GTATAATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.40
Consensus pattern (31 bp):
TATACATATGAATCAAAATTAAAATTTTATA
Found at i:4864090 original size:19 final size:20
Alignment explanation
Indices: 4864056--4864098 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
4864046 AACTTCCCTT
*
4864056 TTTCCATTTTTACAATTAAC
1 TTTCCATTTTTACAATAAAC
*
4864076 TTTCC-TTTTTCCAATAAAC
1 TTTCCATTTTTACAATAAAC
4864095 TTTC
1 TTTC
4864099 TTAAATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTCCATTTTTACAATAAAC
Found at i:4864229 original size:15 final size:15
Alignment explanation
Indices: 4864209--4864239 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4864199 AAAAAAATTA
4864209 TGAAAATGACTCAAT
1 TGAAAATGACTCAAT
4864224 TGAAAATGACTCAAT
1 TGAAAATGACTCAAT
4864239 T
1 T
4864240 TTAAGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (15 bp):
TGAAAATGACTCAAT
Found at i:4866808 original size:29 final size:29
Alignment explanation
Indices: 4866762--4866820 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
4866752 GTGAAGTTAG
*
4866762 TCAATACATCACTGGTCTTATACTCTTTA
1 TCAATACATCACTAGTCTTATACTCTTTA
*
4866791 TCAATACATCACTAGTCTTATACTTTTTA
1 TCAATACATCACTAGTCTTATACTCTTTA
4866820 T
1 T
4866821 AATCTCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.44
Consensus pattern (29 bp):
TCAATACATCACTAGTCTTATACTCTTTA
Found at i:4869674 original size:35 final size:35
Alignment explanation
Indices: 4869635--4869971 Score: 422
Period size: 35 Copynumber: 9.6 Consensus size: 35
4869625 CATGGCAAAG
* * ** *
4869635 TGTGAAATGGAGGTATGACATTAACCATGCTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* * *
4869670 TGTGAAACGTATGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* *
4869705 TGTGAAACGTAGGTATAGTATTAACCATATTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* *
4869740 TGTGAAACTTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
*
4869775 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
*
4869810 TGTGAAACGTAGGTATAGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
4869845 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* * * * *
4869880 TGTGAAATGGAGGGATGGTATTATCCATATTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
** ** ** *
4869915 TAAGAAACGTAGGTATGACATTTCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
**
4869950 TGTGAAATATAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
4869972 TCAATAAGGA
Statistics
Matches: 259, Mismatches: 43, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 259 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
Found at i:4871090 original size:3 final size:3
Alignment explanation
Indices: 4871082--4871109 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4871072 AGATATTTAC
4871082 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4871110 AAGTATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4872211 original size:37 final size:38
Alignment explanation
Indices: 4872169--4872265 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 38
4872159 CGGATAGATT
*
4872169 CGATGAGGCGTTGGTCGCCAC-TTTGCTTCG-GCTTAGC
1 CGATGAGGCGTTGGTCGCCACTTTTGCTTCGAAC-TAGC
* ** *
4872206 CGATGAGACGTTGGTCATCACTTATTTGCTTCGAACTATC
1 CGATGAGGCGTTGGTCGCCAC-T-TTTGCTTCGAACTAGC
*
4872246 CGATGAGGCCTTGGTCGCCA
1 CGATGAGGCGTTGGTCGCCA
4872266 TTCTGGTGTG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
37 18 0.38
40 28 0.60
41 1 0.02
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (38 bp):
CGATGAGGCGTTGGTCGCCACTTTTGCTTCGAACTAGC
Found at i:4873951 original size:19 final size:20
Alignment explanation
Indices: 4873919--4873958 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
4873909 AATGTAAAAT
* *
4873919 AATATTATTTAAAT-TATTA
1 AATATAATTAAAATATATTA
4873938 AATATAATTAAAATATATTA
1 AATATAATTAAAATATATTA
4873958 A
1 A
4873959 CTTACAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATAATTAAAATATATTA
Found at i:4880531 original size:38 final size:38
Alignment explanation
Indices: 4880489--4880564 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
4880479 GAAGATGAAG
4880489 ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
1 ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
4880527 ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
1 ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
4880565 TTGTTAATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (38 bp):
ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
Found at i:4880555 original size:19 final size:19
Alignment explanation
Indices: 4880495--4880556 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
4880485 GAAGATAAAC
4880495 AACAAATGTAAATAGATTA
1 AACAAATGTAAATAGATTA
* * * * * *
4880514 AACAAGTCTTACTATA-AA
1 AACAAATGTAAATAGATTA
4880532 CAACAAATGTAAATAGATTA
1 -AACAAATGTAAATAGATTA
4880552 AACAA
1 AACAA
4880557 GTCTTACTTT
Statistics
Matches: 29, Mismatches: 12, Indels: 4
0.64 0.27 0.09
Matches are distributed among these distances:
18 1 0.03
19 27 0.93
20 1 0.03
ACGTcount: A:0.56, C:0.11, G:0.08, T:0.24
Consensus pattern (19 bp):
AACAAATGTAAATAGATTA
Found at i:4880750 original size:122 final size:123
Alignment explanation
Indices: 4880595--4880828 Score: 407
Period size: 122 Copynumber: 1.9 Consensus size: 123
4880585 TCAATAGCAC
4880595 GATCATATTCATCTGCATGATTATAAACCCATCATAAGTCGATCAATGTGCATTTAAT-AAAAAA
1 GATCATATTCATCTGCATGATTATAAACCCATCATAAGTCGATCAATGTGCATTTAATAAAAAAA
*
4880659 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGTAGATCAATACTATTGAT
66 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCAATACTATTGAT
* *
4880717 GATCATATTTATCTGCATGATTATAAACTCATCATAAGTCGATCAATGTGCATTTAATAAAAAAA
1 GATCATATTCATCTGCATGATTATAAACCCATCATAAGTCGATCAATGTGCATTTAATAAAAAAA
* * *
4880782 CAAATGCTACAGTTTAACTAGACTACGAGCAAAAGCTGAGCAGATCA
66 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCA
4880829 CAGCTAAGAT
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
122 56 0.53
123 49 0.47
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (123 bp):
GATCATATTCATCTGCATGATTATAAACCCATCATAAGTCGATCAATGTGCATTTAATAAAAAAA
CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCAATACTATTGAT
Found at i:4884887 original size:18 final size:18
Alignment explanation
Indices: 4884864--4884900 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4884854 TTGAATAAGA
4884864 ACACCAAAAATAGTTATG
1 ACACCAAAAATAGTTATG
4884882 ACACCAAAAATAGTTATG
1 ACACCAAAAATAGTTATG
4884900 A
1 A
4884901 TGTAATTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.22
Consensus pattern (18 bp):
ACACCAAAAATAGTTATG
Found at i:4907235 original size:20 final size:23
Alignment explanation
Indices: 4907203--4907259 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 23
4907193 GTGATTAATA
4907203 TTAAAA-AATTTAAATAA-AATT
1 TTAAAATAATTTAAATAAGAATT
* *
4907224 TT-AAAT-ATTTAATTAAGATTT
1 TTAAAATAATTTAAATAAGAATT
4907245 TTAAAATAATTTAAA
1 TTAAAATAATTTAAA
4907260 AATAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 12 0.41
21 7 0.24
22 4 0.14
23 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TTAAAATAATTTAAATAAGAATT
Found at i:4907315 original size:20 final size:19
Alignment explanation
Indices: 4907273--4907320 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
4907263 AAAAATATTG
* *
4907273 TTAAAATATATTTAATAGT
1 TTAAAATATATTTAAAAGC
*
4907292 TTAAAATCATGTTTAAAAGC
1 TTAAAAT-ATATTTAAAAGC
*
4907312 TTAAGATAT
1 TTAAAATAT
4907321 TGTTAATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (19 bp):
TTAAAATATATTTAAAAGC
Found at i:4910398 original size:29 final size:29
Alignment explanation
Indices: 4910359--4910438 Score: 117
Period size: 28 Copynumber: 2.8 Consensus size: 29
4910349 CACTTTGTGC
4910359 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
*
4910388 TATTCTGGTGTGTTTGGGA-GGATTATAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
* * *
4910416 GATACTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTTGGATGGA
4910439 CATTTTGGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 24 0.53
29 21 0.47
ACGTcount: A:0.16, C:0.04, G:0.33, T:0.47
Consensus pattern (29 bp):
TATTCTGGTGTGTTTTGGATGGATTATAT
Found at i:4910671 original size:21 final size:21
Alignment explanation
Indices: 4910623--4910730 Score: 128
Period size: 21 Copynumber: 5.1 Consensus size: 21
4910613 GGCTATACTG
* *
4910623 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
4910644 ATTTCAGGCACCTTGTGTGTCGT
1 A--TCAGGCACCTTGTGTGTCGT
*
4910667 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
* *
4910688 TTCAGGTACCTTGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
* *
4910709 TTCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
4910729 AT
1 AT
4910731 ACTGATCAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
20 12 0.16
21 45 0.59
23 19 0.25
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (21 bp):
ATCAGGCACCTTGTGTGTCGT
Found at i:4913119 original size:34 final size:35
Alignment explanation
Indices: 4913080--4913154 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
4913070 GTTTTTCATA
4913080 CTTTGACATATGTGA-G-TTCAATTCTTACCCTTTT
1 CTTTGACAT-TGTGATGTTTCAATTCTTACCCTTTT
* * *
4913114 CTTTGAGATTTTTATGTTTCAATTCTTACCCTTTT
1 CTTTGACATTGTGATGTTTCAATTCTTACCCTTTT
4913149 CTTTGA
1 CTTTGA
4913155 GATTTTTATG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 3 0.08
34 9 0.25
35 24 0.67
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.52
Consensus pattern (35 bp):
CTTTGACATTGTGATGTTTCAATTCTTACCCTTTT
Found at i:4913140 original size:35 final size:35
Alignment explanation
Indices: 4913096--4913167 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
4913086 CATATGTGAG
4913096 TTCAATTCTTACCCTTTTCTTTGAGATTTTTATGT
1 TTCAATTCTTACCCTTTTCTTTGAGATTTTTATGT
4913131 TTCAATTCTTACCCTTTTCTTTGAGATTTTTATGT
1 TTCAATTCTTACCCTTTTCTTTGAGATTTTTATGT
4913166 TT
1 TT
4913168 TTGTGACTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.17, C:0.17, G:0.08, T:0.58
Consensus pattern (35 bp):
TTCAATTCTTACCCTTTTCTTTGAGATTTTTATGT
Found at i:4918556 original size:39 final size:39
Alignment explanation
Indices: 4918513--4918625 Score: 122
Period size: 39 Copynumber: 2.9 Consensus size: 39
4918503 TCGGATAGTT
4918513 CGAAGTAATAGTTGACACCCAGTGTCTCATCGACCTAGC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGACCTAGC
** ** * *
4918552 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCG-ACCTAGC
*
4918591 CGAAGAAATTTAG-TGACACCCAGTGTCTCATCGAC
1 CGAAGTAA--TAGTTGACACCCAGTGTCTCATCGAC
4918626 TCGAGGTCGA
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
38 19 0.33
39 20 0.34
40 1 0.02
41 16 0.28
42 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (39 bp):
CGAAGTAATAGTTGACACCCAGTGTCTCATCGACCTAGC
Found at i:4918573 original size:38 final size:38
Alignment explanation
Indices: 4918513--4918625 Score: 111
Period size: 38 Copynumber: 2.9 Consensus size: 38
4918503 TCGGATAGTT
*
4918513 CGAAGTAATAGTTGACACCCAGTGTCTCATCGACCTAGC
1 CGAAGTAA-AGTTGGCACCCAGTGTCTCATCGACCTAGC
* ** * *
4918552 CGAAGTAAAGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTTGGCACCCAGTGTCTCATCG-ACCTAGC
*
4918591 CGAAG-AAATTTAGTGACACCCAGTGTCTCATCGAC
1 CGAAGTAAAGTT-G-G-CACCCAGTGTCTCATCGAC
4918626 TCGAGGTCGA
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
38 24 0.41
39 19 0.32
40 2 0.03
41 14 0.24
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (38 bp):
CGAAGTAAAGTTGGCACCCAGTGTCTCATCGACCTAGC
Found at i:4919542 original size:12 final size:12
Alignment explanation
Indices: 4919527--4919557 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4919517 TTCTCTTTTA
4919527 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
4919539 TTTTTCTTTCTC
1 TTTTTCTTTCCC
4919551 TTTTTCT
1 TTTTTCT
4919558 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:4924318 original size:28 final size:28
Alignment explanation
Indices: 4924286--4924340 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
4924276 ATCATACACA
4924286 TTTAAATAAATAAATAT-ATTAATTTATT
1 TTTAAATAAATAAATATAATT-ATTTATT
*
4924314 TTTAATTAAATAAATATAATTATTTAT
1 TTTAAATAAATAAATATAATTATTTAT
4924341 ATATACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTAAATAAATAAATATAATTATTTATT
Found at i:4937846 original size:18 final size:18
Alignment explanation
Indices: 4937820--4937854 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4937810 AGTATTTCTC
*
4937820 AATTGGATATTTTTAAGA
1 AATTCGATATTTTTAAGA
4937838 AATTCGATATTTTTAAG
1 AATTCGATATTTTTAAG
4937855 TTTTAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (18 bp):
AATTCGATATTTTTAAGA
Found at i:4949377 original size:28 final size:28
Alignment explanation
Indices: 4949322--4949405 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
4949312 TTAAATTTTA
* * *
4949322 TCCACGTGTTATTCAACATCCTATGTTG
1 TCCACATGTCATTCGACATCCTATGTTG
* *
4949350 TTCACATGTCGTTCGACATCCTATGTTG
1 TCCACATGTCATTCGACATCCTATGTTG
*
4949378 TCCACGTGTCATTCGACATCCTATGTTG
1 TCCACATGTCATTCGACATCCTATGTTG
4949406 AAAGCTTAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (28 bp):
TCCACATGTCATTCGACATCCTATGTTG
Found at i:4953824 original size:44 final size:44
Alignment explanation
Indices: 4953761--4953891 Score: 253
Period size: 44 Copynumber: 3.0 Consensus size: 44
4953751 TCTGCTAGTG
4953761 TTAATATTCCTTGGTCGCCCAGCTCCTTCCAATTCGTGAATTTT
1 TTAATATTCCTTGGTCGCCCAGCTCCTTCCAATTCGTGAATTTT
*
4953805 TTAATATTCCTTGGTCGCCCAGCTCCTTCCAATTCATGAATTTT
1 TTAATATTCCTTGGTCGCCCAGCTCCTTCCAATTCGTGAATTTT
4953849 TTAATATTCCTTGGTCGCCCAGCTCCTTCCAATTCGTGAATTT
1 TTAATATTCCTTGGTCGCCCAGCTCCTTCCAATTCGTGAATTT
4953892 GCACATCATT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 85 1.00
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.40
Consensus pattern (44 bp):
TTAATATTCCTTGGTCGCCCAGCTCCTTCCAATTCGTGAATTTT
Found at i:4955886 original size:14 final size:14
Alignment explanation
Indices: 4955867--4955894 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4955857 ACTCACTGTT
4955867 TATCCGTGCATATG
1 TATCCGTGCATATG
4955881 TATCCGTGCATATG
1 TATCCGTGCATATG
4955895 CAGATCATGC
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:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (14 bp):
TATCCGTGCATATG
Found at i:4966062 original size:33 final size:33
Alignment explanation
Indices: 4966024--4966089 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
4966014 GACTGAGTGG
* *
4966024 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTGGTTGCTAGACAGGAGCTAGAATGT
*
4966057 GAGTGTTTGGTTGCTAGATAGGAGCTAGAATGT
1 GAGTGTTTGGTTGCTAGACAGGAGCTAGAATGT
4966090 CAAGAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.21, C:0.08, G:0.39, T:0.32
Consensus pattern (33 bp):
GAGTGTTTGGTTGCTAGACAGGAGCTAGAATGT
Found at i:4969866 original size:39 final size:37
Alignment explanation
Indices: 4969799--4969891 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
4969789 ACCAGAATGG
* *
4969799 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
4969838 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
4969875 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
4969892 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:4970254 original size:3 final size:3
Alignment explanation
Indices: 4970246--4970278 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4970236 ATTCCCACTC
4970246 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4970279 CTTACCTCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4971582 original size:16 final size:16
Alignment explanation
Indices: 4971563--4971597 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4971553 TTCTTTGTTC
4971563 TTTCTATTCTGTTTCT
1 TTTCTATTCTGTTTCT
* *
4971579 TTTCTGTTTTGTTTCT
1 TTTCTATTCTGTTTCT
4971595 TTT
1 TTT
4971598 ATATATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTCTATTCTGTTTCT
Found at i:4971623 original size:17 final size:17
Alignment explanation
Indices: 4971601--4971678 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 17
4971591 TTCTTTTATA
4971601 TATAATAATATAATATT
1 TATAATAATATAATATT
* *
4971618 TATAAT-ATA-ATTAAT
1 TATAATAATATAATATT
*
4971633 T-TAATAATAT-A-CTT
1 TATAATAATATAATATT
*
4971647 TATAATTAATTTATATATT
1 TATAA-TAATATA-ATATT
4971666 TAT-ATAA-ATAATA
1 TATAATAATATAATA
4971679 ATATAAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
14 6 0.13
15 14 0.30
16 10 0.22
17 9 0.20
18 2 0.04
19 5 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAATAATATAATATT
Found at i:4971624 original size:14 final size:17
Alignment explanation
Indices: 4971603--4971643 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 17
4971593 CTTTTATATA
4971603 TAATAATATAA-T-ATT
1 TAATAATATAATTAATT
4971618 T-ATAATATAATTAATT
1 TAATAATATAATTAATT
4971634 TAATAATATA
1 TAATAATATA
4971644 CTTTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.39
15 2 0.09
16 4 0.17
17 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAATATAATTAATT
Found at i:4971661 original size:11 final size:11
Alignment explanation
Indices: 4971623--4971661 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
4971613 ATATTTATAA
4971623 TATAATTAATT
1 TATAATTAATT
*
4971634 TAATAATATACTT
1 T-ATAAT-TAATT
4971647 TATAATTAATT
1 TATAATTAATT
4971658 TATA
1 TATA
4971662 TATTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:4971680 original size:24 final size:24
Alignment explanation
Indices: 4971597--4971677 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
4971587 TTGTTTCTTT
*
4971597 TATATATAA-TAATATAATATTTA
1 TATATATAATTAATTTAATATTTA
*
4971620 TA-ATATAATTAATTTAATA-ATA
1 TATATATAATTAATTTAATATTTA
*
4971642 TACTTTATAATTAATTTATATATTTA
1 TA-TATATAATTAATTTA-ATATTTA
*
4971668 TATAAATAAT
1 TATATATAAT
4971678 AATATAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 10 0.21
23 11 0.23
24 13 0.28
25 9 0.19
26 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
TATATATAATTAATTTAATATTTA
Found at i:4978172 original size:22 final size:23
Alignment explanation
Indices: 4978146--4978190 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
4978136 ACCTGATCAG
4978146 AATACGACACAT-AAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
4978168 AATACGACACATAAAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
4978191 CAGTAAAGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (23 bp):
AATACGACACATAAAGTGCCTGA
Found at i:4978390 original size:23 final size:23
Alignment explanation
Indices: 4978360--4978415 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
4978350 GATTCCATCC
*
4978360 AAACACACCAAAAT-GTCCAACCA
1 AAACACACCAAAATAATCC-ACCA
* *
4978383 AAACACACCAATATAATCCTCCA
1 AAACACACCAAAATAATCCACCA
4978406 AAACACACCA
1 AAACACACCA
4978416 GTATCATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.52, C:0.36, G:0.02, T:0.11
Consensus pattern (23 bp):
AAACACACCAAAATAATCCACCA
Found at i:4978425 original size:28 final size:28
Alignment explanation
Indices: 4978392--4978477 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
4978382 AAAACACACC
*
4978392 AATATAATCCTCCAAAACACACCAGTAT
1 AATATAATCCTCCAAAACACACCAGAAT
* * * *
4978420 CATATAATCCTCCCAAACAAACTAGAAT
1 AATATAATCCTCCAAAACACACCAGAAT
*
4978448 AATATAATCCACCCAAAACACACCAGAAT
1 AATATAATCC-TCCAAAACACACCAGAAT
4978477 A
1 A
4978478 GCACAAAGTG
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 32 0.68
29 15 0.32
ACGTcount: A:0.49, C:0.29, G:0.03, T:0.19
Consensus pattern (28 bp):
AATATAATCCTCCAAAACACACCAGAAT
Found at i:4987060 original size:27 final size:27
Alignment explanation
Indices: 4987030--4987170 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
4987020 GTGACGAAGT
4987030 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
*
4987057 CACCAGA-ACAGATATATGTGGTAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
4987084 CACCAGAT-CAGATAATTGTGCCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
4987111 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
4987138 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
4987165 CACCAG
1 CACCAG
4987171 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.10
27 84 0.86
28 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:4987171 original size:54 final size:54
Alignment explanation
Indices: 4987030--4987173 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
4987020 GTGACGAAGT
* * *
4987030 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
4987084 CACCAGATCAGATAATTGTGCCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
4987138 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
4987174 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:4987427 original size:16 final size:17
Alignment explanation
Indices: 4987406--4987438 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4987396 AAAATTTGGG
4987406 CCCG-TTGGCCCATTAT
1 CCCGTTTGGCCCATTAT
4987422 CCCGTTTTGGCCCATTA
1 CCCG-TTTGGCCCATTA
4987439 AGCCCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
18 11 0.73
ACGTcount: A:0.12, C:0.36, G:0.18, T:0.33
Consensus pattern (17 bp):
CCCGTTTGGCCCATTAT
Found at i:4988793 original size:26 final size:26
Alignment explanation
Indices: 4988762--4988869 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
4988752 TGAAATGCCC
*
4988762 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
4988788 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
4988814 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
4988840 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
4988866 ATCA
1 ATCA
4988870 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:4993950 original size:18 final size:19
Alignment explanation
Indices: 4993927--4993966 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
4993917 TTCCTTTAAA
4993927 TTATTTCAT-TATTTA-TTT
1 TTATTTCATCT-TTTACTTT
4993945 TTATTTCATCTTTTACTTT
1 TTATTTCATCTTTTACTTT
4993964 TTA
1 TTA
4993967 CTTTTTACGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTTCATCTTTTACTTT
Found at i:4996911 original size:18 final size:19
Alignment explanation
Indices: 4996873--4996912 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
4996863 CCCATCTTTC
4996873 TCTTCTAATTGGAATTTTA
1 TCTTCTAATTGGAATTTTA
4996892 TCTTCTAATTGGAA-TTTA
1 TCTTCTAATTGGAATTTTA
4996910 TCT
1 TCT
4996913 GATTTTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (19 bp):
TCTTCTAATTGGAATTTTA
Found at i:5005599 original size:31 final size:31
Alignment explanation
Indices: 5005564--5005623 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
5005554 ATGATTGAAT
*
5005564 TATTCAAAAAATTTTATTCAAGTCCCTAAAC
1 TATTCAAAAAATTTTATTCAAGTCACTAAAC
*
5005595 TATTCAAAAAATTTTATTTAAGTCACTAA
1 TATTCAAAAAATTTTATTCAAGTCACTAA
5005624 GCGGTTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.38
Consensus pattern (31 bp):
TATTCAAAAAATTTTATTCAAGTCACTAAAC
Found at i:5008529 original size:15 final size:15
Alignment explanation
Indices: 5008511--5008553 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
5008501 ATTCAATGTT
*
5008511 TAATAATTTAAAAAG
1 TAATAATTTAAAAAA
*
5008526 TAATTATTTGAAAAAA
1 TAATAATTT-AAAAAA
*
5008542 TATTAATTTAAA
1 TAATAATTTAAA
5008554 TTGAAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (15 bp):
TAATAATTTAAAAAA
Found at i:5008715 original size:22 final size:23
Alignment explanation
Indices: 5008675--5008719 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
5008665 AATATAGTTG
5008675 TTTGATAAAAGTAAATATTATTT
1 TTTGATAAAAGTAAATATTATTT
* *
5008698 TTTGA-AAAATTAATTATTATTT
1 TTTGATAAAAGTAAATATTATTT
5008720 AATTTTAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (23 bp):
TTTGATAAAAGTAAATATTATTT
Found at i:5031322 original size:23 final size:23
Alignment explanation
Indices: 5031294--5031337 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
5031284 TTTATACTAT
5031294 TCTCTGTCTTTTAACACGCTTTC
1 TCTCTGTCTTTTAACACGCTTTC
*
5031317 TCTCTGTCTTTTGACACGCTT
1 TCTCTGTCTTTTAACACGCTT
5031338 CTTTCTTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.30, G:0.11, T:0.48
Consensus pattern (23 bp):
TCTCTGTCTTTTAACACGCTTTC
Found at i:5031976 original size:23 final size:23
Alignment explanation
Indices: 5031948--5031992 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
5031938 AAGAGAAAGG
5031948 AGAAGATTGCGTTGAAAAATGGA
1 AGAAGATTGCGTTGAAAAATGGA
*
5031971 AGAAGATTGTGTTGAAAAATGG
1 AGAAGATTGCGTTGAAAAATGG
5031993 CAAATCTGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.31, T:0.24
Consensus pattern (23 bp):
AGAAGATTGCGTTGAAAAATGGA
Found at i:5040005 original size:29 final size:25
Alignment explanation
Indices: 5039952--5040000 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
5039942 GTAATTCTTA
5039952 AAAAAAAATTAAGATTAAATATTTT
1 AAAAAAAATTAAGATTAAATATTTT
5039977 AAAAAAAATTAAGATTAAATATTT
1 AAAAAAAATTAAGATTAAATATTT
5040001 CTTTTTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
AAAAAAAATTAAGATTAAATATTTT
Found at i:5049596 original size:46 final size:45
Alignment explanation
Indices: 5049538--5049626 Score: 101
Period size: 47 Copynumber: 2.0 Consensus size: 45
5049528 TAAACACCAT
5049538 TAAAAATAATAGA-AAATAAAAATTT-TAAAAATATAATATATATAA
1 TAAAAATAATAGATAAATAAAAATTTGT-AAAATAT-ATATATATAA
* * * *
5049583 TAAAATTATATAGATAATTTAATATTTGTAAAATATATATATAT
1 TAAAAATA-ATAGATAAATAAAAATTTGTAAAATATATATATAT
5049627 TTTTTACTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
45 7 0.19
46 13 0.35
47 16 0.43
48 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (45 bp):
TAAAAATAATAGATAAATAAAAATTTGTAAAATATATATATATAA
Found at i:5068141 original size:21 final size:21
Alignment explanation
Indices: 5068109--5068149 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
5068099 AGGCTCGAGG
5068109 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
5068130 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
5068150 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:5086970 original size:18 final size:18
Alignment explanation
Indices: 5086936--5086984 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
5086926 ACACATAAAG
5086936 TTAGATAAAAAAACACT-T
1 TTAGAT-AAAAAACACTAT
* *
5086954 TTGAGGTAAAAAGCACTAT
1 TT-AGATAAAAAACACTAT
5086973 TTAGATAAAAAA
1 TTAGATAAAAAA
5086985 ATATTGTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (18 bp):
TTAGATAAAAAACACTAT
Found at i:5088358 original size:18 final size:19
Alignment explanation
Indices: 5088330--5088372 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
5088320 TAGATATTGT
5088330 TTTTAATAATT-TTAA-AATA
1 TTTT-ATAATTCTTAATAA-A
5088349 TTTTATAATTCTTAATAAA
1 TTTTATAATTCTTAATAAA
5088368 TTTTA
1 TTTTA
5088373 ATCAATTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.27
19 14 0.64
20 2 0.09
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTATAATTCTTAATAAA
Found at i:5095049 original size:27 final size:27
Alignment explanation
Indices: 5094998--5095049 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
5094988 TTAAAATTTA
* *
5094998 ATTTTAAATGTTAAATTTATTAATGGT
1 ATTTTAAATGTTAAATTGATGAATGGT
5095025 ATTTTAAATGTTAAATTGATGAATG
1 ATTTTAAATGTTAAATTGATGAATG
5095050 TAATATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.48
Consensus pattern (27 bp):
ATTTTAAATGTTAAATTGATGAATGGT
Found at i:5095301 original size:21 final size:21
Alignment explanation
Indices: 5095277--5095342 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
5095267 ACTCATATGA
*
5095277 GTTTCAGTTTAACCCTTCTGG
1 GTTTCAATTTAACCCTTCTGG
* * *
5095298 GTTTCAATTTAGCTCTTCTGA
1 GTTTCAATTTAACCCTTCTGG
* * *
5095319 GCTTCAAATTAA-CCTTATGG
1 GTTTCAATTTAACCCTTCTGG
5095339 GTTT
1 GTTT
5095343 TTGTTCAGCT
Statistics
Matches: 34, Mismatches: 11, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
20 8 0.24
21 26 0.76
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.44
Consensus pattern (21 bp):
GTTTCAATTTAACCCTTCTGG
Found at i:5095372 original size:41 final size:42
Alignment explanation
Indices: 5095272--5095385 Score: 122
Period size: 41 Copynumber: 2.7 Consensus size: 42
5095262 AGTTAACTCA
* * *
5095272 TATGAGTTTCAGTTTAACCCTTCTGGGTTTCAATTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAATTCAGCTCT
* ** ***
5095314 TCTGAGCTTCAAATTAA-CCTTATGGGTTTTTGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAATTCAGCTCT
* *
5095355 TATGAGCTTCCGTTTAACCCTTACGGGTTTC
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTC
5095386 TCTTTAACAC
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
41 32 0.57
42 24 0.43
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTCAATTCAGCTCT
Found at i:5099447 original size:49 final size:50
Alignment explanation
Indices: 5099392--5099511 Score: 163
Period size: 49 Copynumber: 2.4 Consensus size: 50
5099382 ATCTAGTACG
* **
5099392 CATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCAG-TACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCAT-CAGATACA
* * *
5099441 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCAGATACA
5099491 CATAGTAGCCTGCACTTAGTA
1 CATAGTAGCCTGCACTTAGTA
5099512 GTAGTCTGCC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 34 0.55
50 28 0.45
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCAGATACA
Found at i:5099515 original size:17 final size:17
Alignment explanation
Indices: 5099493--5099528 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5099483 CTGATACACA
5099493 TAGTAGCCTGCACTTAG
1 TAGTAGCCTGCACTTAG
* *
5099510 TAGTAGTCTGCCCTTAG
1 TAGTAGCCTGCACTTAG
5099527 TA
1 TA
5099529 CTACACACGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (17 bp):
TAGTAGCCTGCACTTAG
Found at i:5101111 original size:23 final size:23
Alignment explanation
Indices: 5101085--5101182 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
5101075 ATAAGTGCCA
5101085 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
5101108 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
5101131 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
5101153 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
5101176 CACTGAT
1 CACTGAT
5101183 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:5101150 original size:45 final size:45
Alignment explanation
Indices: 5101092--5101180 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
5101082 CCACACTGAT
* *
5101092 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
5101137 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
5101181 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:5105368 original size:102 final size:102
Alignment explanation
Indices: 5105192--5105393 Score: 395
Period size: 102 Copynumber: 2.0 Consensus size: 102
5105182 TGGTCATTCC
*
5105192 AATGGCTAATCATTTACAAACCCTTTTCTTTCCAAACCATAGCCATATCATAAGATCATTTACAC
1 AATGGCCAATCATTTACAAACCCTTTTCTTTCCAAACCATAGCCATATCATAAGATCATTTACAC
5105257 AAAGTGAGCATTTTGCCATACATGCCACATTCAAAGG
66 AAAGTGAGCATTTTGCCATACATGCCACATTCAAAGG
5105294 AATGGCCAATCATTTACAAACCCTTTTCTTTCCAAACCATAGCCATATCATAAGATCATTTACAC
1 AATGGCCAATCATTTACAAACCCTTTTCTTTCCAAACCATAGCCATATCATAAGATCATTTACAC
5105359 AAAGTGAGCATTTTGCCATACATGCCACATTCAAA
66 AAAGTGAGCATTTTGCCATACATGCCACATTCAAA
5105394 ACACACAAGC
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 99 1.00
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.29
Consensus pattern (102 bp):
AATGGCCAATCATTTACAAACCCTTTTCTTTCCAAACCATAGCCATATCATAAGATCATTTACAC
AAAGTGAGCATTTTGCCATACATGCCACATTCAAAGG
Found at i:5105975 original size:47 final size:49
Alignment explanation
Indices: 5105853--5106032 Score: 200
Period size: 47 Copynumber: 3.8 Consensus size: 49
5105843 TGTAACCCGC
* * * *
5105853 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
5105899 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
5105949 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-CACAT
*
5105993 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
5106033 TCAACCATTC
Statistics
Matches: 114, Mismatches: 7, Indels: 22
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 37 0.32
47 58 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:5106021 original size:94 final size:93
Alignment explanation
Indices: 5105861--5106032 Score: 299
Period size: 94 Copynumber: 1.8 Consensus size: 93
5105851 GCCCATAAGT
* * *
5105861 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
5105926 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
5105954 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-CACATCCATAAGTGAACTCGGACTCAACTCA
5106019 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
5106033 TCAACCATTC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 30 0.41
94 44 0.59
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:5106485 original size:30 final size:30
Alignment explanation
Indices: 5106451--5106510 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
5106441 CCTTAATACG
5106451 AACTTTGGCAAAATTAC-CATTTTACCCCTA
1 AACTTTGGCAAAATTACAC-TTTTACCCCTA
* * *
5106481 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTACCCCTA
5106511 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTACCCCTA
Found at i:5108677 original size:13 final size:13
Alignment explanation
Indices: 5108661--5108690 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5108651 ATATAACTGA
5108661 TTCATATAGCCAT
1 TTCATATAGCCAT
*
5108674 TTCATATAGTCAT
1 TTCATATAGCCAT
5108687 TTCA
1 TTCA
5108691 AAGTGTTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (13 bp):
TTCATATAGCCAT
Found at i:5133035 original size:22 final size:22
Alignment explanation
Indices: 5133007--5133051 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
5132997 TGGGCTGGTG
*
5133007 TAAGTCACATTTCATTGTTCAT
1 TAAGTCACATTTCATTGCTCAT
5133029 TAAGTCACATTTCATTGCTCAT
1 TAAGTCACATTTCATTGCTCAT
5133051 T
1 T
5133052 CGTGTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (22 bp):
TAAGTCACATTTCATTGCTCAT
Found at i:5147893 original size:21 final size:21
Alignment explanation
Indices: 5147867--5147907 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5147857 AGACGAGCAA
* *
5147867 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
5147888 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
5147908 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:5163156 original size:18 final size:16
Alignment explanation
Indices: 5163133--5163177 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
5163123 AGTATAAATG
5163133 ATATACAAAACAATATAT
1 ATATACAAAA-AATA-AT
5163151 ATATACAAATAAATAAT
1 ATATACAAA-AAATAAT
*
5163168 ATACACAAAA
1 ATATACAAAA
5163178 TACAAATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 1 0.04
17 10 0.40
18 13 0.52
19 1 0.04
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.24
Consensus pattern (16 bp):
ATATACAAAAAATAAT
Found at i:5163223 original size:23 final size:20
Alignment explanation
Indices: 5163193--5163234 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 20
5163183 ATAACTTAAT
5163193 ATAAATAATATATATAAAAATA
1 ATAAATAATAT-T-TAAAAATA
5163215 ATAATATAATATTTAAAAAT
1 ATAA-ATAATATTTAAAAAT
5163235 GTTCATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 5 0.26
23 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAAATAATATTTAAAAATA
Found at i:5163773 original size:13 final size:13
Alignment explanation
Indices: 5163755--5163780 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5163745 GGTAATGGGG
5163755 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
5163768 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
5163781 GGAATTAGTA
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:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGAT
Found at i:5168382 original size:23 final size:22
Alignment explanation
Indices: 5168321--5168386 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
5168311 ACCTGATCAG
5168321 AATACGACACATAAGTGCCTG-
1 AATACGACACATAAGTGCCTGA
* * *
5168342 AA-ACGATACACGAGGTGCCTGA
1 AATACGACACA-TAAGTGCCTGA
5168364 AATACGACACATAAAGTGCCTGA
1 AATACGACACAT-AAGTGCCTGA
5168387 TCAGTAAAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 7 0.20
21 10 0.29
22 2 0.06
23 16 0.46
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (22 bp):
AATACGACACATAAGTGCCTGA
Found at i:5168646 original size:23 final size:23
Alignment explanation
Indices: 5168578--5168647 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 23
5168568 AATGTCCAAC
*
5168578 CAAAACACACCAGTATAATCCTA
1 CAAAACACACCAGAATAATCCTA
*
5168601 CAAAACACACCAGTATCATATAATCCTC
1 CAAAACACACCAG----A-ATAATCCTA
*
5168629 CCAAACACACCAGAATAAT
1 CAAAACACACCAGAATAAT
5168648 ATAATCCATC
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
23 18 0.46
24 1 0.03
28 20 0.51
ACGTcount: A:0.47, C:0.31, G:0.04, T:0.17
Consensus pattern (23 bp):
CAAAACACACCAGAATAATCCTA
Found at i:5168673 original size:29 final size:28
Alignment explanation
Indices: 5168591--5168674 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
5168581 AACACACCAG
* * *
5168591 TATAATCCTACAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
5168619 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
5168647 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
5168675 GCACAAAGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 32 0.64
29 18 0.36
ACGTcount: A:0.48, C:0.30, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:5170356 original size:50 final size:51
Alignment explanation
Indices: 5170231--5170479 Score: 265
Period size: 50 Copynumber: 4.8 Consensus size: 51
5170221 GATAATAACA
* * ** *
5170231 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TC-TCGTGATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCGTCA--G
* *
5170282 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATC-TCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCGTCAG
* * * *
5170332 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTC-TCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCGTCAG
*
5170382 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-GATCTTAAAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCG-TC----AG
* *
5170437 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
5170480 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 21, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
50 86 0.51
51 36 0.21
52 4 0.02
53 2 0.01
55 1 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.26
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCGTCAG
Found at i:5170409 original size:100 final size:104
Alignment explanation
Indices: 5170230--5170479 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
5170220 TGATAATAAC
**
5170230 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
5170295 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CAG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAAG
* *
5170332 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
5170395 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAAG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAAG
* *
5170437 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
5170480 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAAG
Found at i:5170595 original size:13 final size:13
Alignment explanation
Indices: 5170574--5170605 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5170564 GCTTGGATCA
*
5170574 TCATCAAATAAAT
1 TCATAAAATAAAT
5170587 TCATAAAATAAAT
1 TCATAAAATAAAT
5170600 TCATAA
1 TCATAA
5170606 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:5170852 original size:30 final size:30
Alignment explanation
Indices: 5170817--5170874 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5170807 CCTCGACTCT
*
5170817 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
5170847 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
5170875 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:5179148 original size:31 final size:29
Alignment explanation
Indices: 5179113--5179183 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 29
5179103 TTAATAAAGG
*
5179113 TAAAATTATACTTTAATCCTCCCTAAAATTA
1 TAAAATTATA-TTTAATCCTCCAT-AAATTA
*
5179144 TAAAAATTCA-ATTTAATCCTTCATAAATTA
1 T-AAAATT-ATATTTAATCCTCCATAAATTA
*
5179174 TAAAAATATA
1 TAAAATTATA
5179184 AACTATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
28 1 0.03
29 6 0.18
30 7 0.21
31 12 0.35
32 7 0.21
33 1 0.03
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (29 bp):
TAAAATTATATTTAATCCTCCATAAATTA
Found at i:5181330 original size:21 final size:20
Alignment explanation
Indices: 5181306--5181351 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
5181296 ATTTATTAGG
*
5181306 AAATATTTATTTTGATGTTTT
1 AAATATTT-TTTTGATGTATT
5181327 AAATA-TTTTTTGATGTATT
1 AAATATTTTTTTGATGTATT
*
5181346 ATATAT
1 AAATAT
5181352 ATAAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 15 0.68
20 2 0.09
21 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (20 bp):
AAATATTTTTTTGATGTATT
Found at i:5183984 original size:10 final size:11
Alignment explanation
Indices: 5183937--5184007 Score: 56
Period size: 11 Copynumber: 6.2 Consensus size: 11
5183927 TTTAAAGAAG
*
5183937 ATATATTAATA
1 ATATATTAAAA
5183948 ATA-ATTCAAAA
1 ATATATT-AAAA
*
5183959 AAAT-TTAAAA
1 ATATATTAAAA
*
5183969 GTAATACTTAAAA
1 AT-ATA-TTAAAA
5183982 ATATATTAAAA
1 ATATATTAAAA
5183993 ATTATATTTAAAA
1 A-TATA-TTAAAA
5184006 AT
1 AT
5184008 TAAGAATAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
10 7 0.15
11 19 0.40
12 8 0.17
13 14 0.29
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (11 bp):
ATATATTAAAA
Found at i:5183990 original size:24 final size:23
Alignment explanation
Indices: 5183944--5184007 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
5183934 AAGATATATT
*
5183944 AATAATAATTCAAAAAAATTTAAA
1 AATAATAATT-AAAAATATTTAAA
* *
5183968 AGTAATACTTAAAAATATATTAAA
1 AATAATAATTAAAAATAT-TTAAA
* *
5183992 AATTATATTTAAAAAT
1 AATAATAATTAAAAAT
5184008 TAAGAATAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 7 0.21
24 26 0.79
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (23 bp):
AATAATAATTAAAAATATTTAAA
Found at i:5184005 original size:13 final size:13
Alignment explanation
Indices: 5183961--5184009 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
5183951 ATTCAAAAAA
* *
5183961 ATTTAAAAGTAAT
1 ATTTAAAAATTAT
*
5183974 ACTTAAAAA-TAT
1 ATTTAAAAATTAT
5183986 A-TTAAAAATTAT
1 ATTTAAAAATTAT
5183998 ATTTAAAAATTA
1 ATTTAAAAATTA
5184010 AGAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 7 0.23
12 7 0.23
13 17 0.55
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (13 bp):
ATTTAAAAATTAT
Found at i:5191368 original size:6 final size:6
Alignment explanation
Indices: 5191359--5191388 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
5191349 TCTTTTTCTT
*
5191359 TTTATA TTTATA TTTATA TTTATA TATATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA
5191389 ATTTCAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TTTATA
Found at i:5205749 original size:47 final size:47
Alignment explanation
Indices: 5205696--5205789 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
5205686 ATTTTGACAG
5205696 TTAACAATTTCTGAATGTGTTGCAACTAATCATTGAATATTCATGTA
1 TTAACAATTTCTGAATGTGTTGCAACTAATCATTGAATATTCATGTA
5205743 TTAACAATTTCTGAATGTGTTGCAACTAATCATTGAATATTCATGTA
1 TTAACAATTTCTGAATGTGTTGCAACTAATCATTGAATATTCATGTA
5205790 CTCATTCAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (47 bp):
TTAACAATTTCTGAATGTGTTGCAACTAATCATTGAATATTCATGTA
Done.