Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 377 of 425
Found at i:115907226 original size:27 final size:27
Alignment explanation
Indices: 115907196--115907248 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
115907186 AAGGTTGAGA
*
115907196 GTTCGAG-GTTCAAGGTTCAAGCTTTGG
1 GTTCGAGAG-TCAAGGTTCAAGATTTGG
115907223 GTTCGAGAGTCAAGGTTCAAGATTTG
1 GTTCGAGAGTCAAGGTTCAAGATTTG
115907249 AACCCTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.32
Consensus pattern (27 bp):
GTTCGAGAGTCAAGGTTCAAGATTTGG
Found at i:115915398 original size:17 final size:17
Alignment explanation
Indices: 115915355--115915388 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
115915345 AAATACTATC
115915355 TAAA-TAAATATTAAAT
1 TAAATTAAATATTAAAT
115915371 TAAATTAAATATTAAAT
1 TAAATTAAATATTAAAT
115915388 T
1 T
115915389 TATTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTAAATATTAAAT
Found at i:115917223 original size:25 final size:25
Alignment explanation
Indices: 115917195--115917244 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
115917185 TACATTATGT
*
115917195 ATAAAAAATCTT-AAAGTAAATAATA
1 ATAAAAAAT-TTCAAAATAAATAATA
*
115917220 ATAAAACATTTCAAAATAAATAATA
1 ATAAAAAATTTCAAAATAAATAATA
115917245 GAGTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (25 bp):
ATAAAAAATTTCAAAATAAATAATA
Found at i:115918509 original size:14 final size:15
Alignment explanation
Indices: 115918490--115918519 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
115918480 GTTTCTTGTT
115918490 TTTCTCT-TTGTTTG
1 TTTCTCTGTTGTTTG
115918504 TTTCTCTGTTGTTTG
1 TTTCTCTGTTGTTTG
115918519 T
1 T
115918520 ATTGCTTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.13, G:0.17, T:0.70
Consensus pattern (15 bp):
TTTCTCTGTTGTTTG
Found at i:115918728 original size:15 final size:16
Alignment explanation
Indices: 115918708--115918742 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
115918698 TGGGTTTCAA
115918708 TTTTATAATTT-AGAC
1 TTTTATAATTTGAGAC
*
115918723 TTTTATACTTTGAGAC
1 TTTTATAATTTGAGAC
115918739 TTTT
1 TTTT
115918743 CATTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (16 bp):
TTTTATAATTTGAGAC
Found at i:115919041 original size:44 final size:44
Alignment explanation
Indices: 115918976--115919839 Score: 322
Period size: 44 Copynumber: 18.6 Consensus size: 44
115918966 TTCGCTCCAC
* *
115918976 TGCTCCACTGCGACTTCAGGGAGATAAGGTTTATAACTTCAATA
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATA
* * ** *
115919020 TGCTCCACTGCAACTTTAGGGAGATAAGATTTGTGGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATA
* **
115919064 TGCTCCAAC-GCAACTTCAGGGAGATAAGATTCACCA-TGGT-AGATTTGA
1 TGCTCC-ACTGCAACTTCAGGGAGATAAGATTTATAACT--TCA-A--T-A
* * * * * * * *
115919112 TCCGACCTACTGCAACTTCAAAGG-TATAGGATTTATAGCTTTAATC
1 TGC-TCC-ACTGCAACTTC-AGGGAGATAAGATTTATAACTTCAATA
* * * * * * *
115919158 TGCTCTACTGCAACCTCAGAGAGATAAGATTTGCTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTT-ATAACTTCAATA
* * * * * *
115919203 TGCTCCGCTGTAACTTTAGGGAGATAAGGCTTGTTATGGTAGA-TTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAA-G-AT-TTA---TA-ACTTCAATA
* * * * ** * *
115919253 TGAC-CTACTGCAACTTCAGAGG-TATAGGATTTGTCGCTTTAATC
1 TG-CTCCACTGCAACTTCAG-GGAGATAAGATTTATAACTTCAATA
** * * *
115919297 CACTTCACTGCAACTTCAAGGAGATAAGATTTGTGATTTGTAACTTCAATT
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TT-T-A----TAACTTCAATA
* * * *
115919348 TGTTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGCAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAA-GATT-T-A--T--AACTTCAATA
* * ** * * *
115919399 TGCTCCACTGTAACTTTAGGGAGATAAGATTCGCTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT-TATAACTTCAATA
* * *
115919444 TGCTCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACT-
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAA-TA
* * ** *
115919488 TGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGATTTGTAGTTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAA-------GATTTATAACTTCAATA
* * * * ** * * *
115919539 TGCCCCACTACAAATTCAAGGAGATAAGATTCGCTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT-TATAACTTCAATA
* * * **
115919584 TGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATA
* * *
115919628 TGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAACTTCAATT
1 TGCTCCACTGCAACTTCAGGGAGATAA-------GATTTATAACTTCAATA
* ** * * *
115919679 TGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT-TATAACTTCAATA
* * * * **
115919724 TACTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATA
* * * * **
115919768 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATA
115919812 TGCTCCACTGCAACTTCAGGGAGATAAG
1 TGCTCCACTGCAACTTCAGGGAGATAAG
115919840 GTTTGTGATT
Statistics
Matches: 617, Mismatches: 149, Indels: 108
0.71 0.17 0.12
Matches are distributed among these distances:
43 6 0.01
44 255 0.41
45 140 0.23
46 4 0.01
47 6 0.01
48 5 0.01
49 9 0.01
50 44 0.07
51 147 0.24
52 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATA
Found at i:115919357 original size:51 final size:51
Alignment explanation
Indices: 115919302--115919850 Score: 370
Period size: 51 Copynumber: 11.7 Consensus size: 51
115919292 TAATCCACTT
* * *
115919302 CACTGCAACTTCAAGGAGATAAGATTTGTGATTTGTAACTTCAATTTGTTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
* * *
115919353 CACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGCAGCTTCAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
* * * *
115919404 CACTGTAACTTTAGGGAGATAAGATTCGCT-A----T--CTTCAGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-TGATTTGTAACTTCAATCTGCTC
* *
115919449 CATTGCAACTTCAGGGAGAT-A-A-----GACTTGTAACTTCAA-CTTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATC-TGCTC
* * ** *
115919493 CACTGCAACTTCAGAGAGATAAGGTTTGTGATTTGTAGTTTCAATCTGCCC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
* * * * *
115919544 CACTACAAATTCAAGGAGATAAGATTCGCT-A----T--CTTCAGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-TGATTTGTAACTTCAATCTGCTC
* * *
115919589 CACTGCAACTTTAGGGAGAT-A-A-----GACTTGTAACTTCAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
* * * *
115919633 TACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAACTTCAATTTGCCC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
* * *
115919684 CACTGCAACTTCAGGGAGATAAGATTCGCT-A----T--CTTCAGTCTACTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-TGATTTGTAACTTCAATCTGCTC
* * *
115919729 CACTGTAACTTCAGGGAGAT-A-A-----GACTTGTAACTTCAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
* *
115919773 CACTGCAACTTCAGGGAGATAAGGTTTGTGA----T---TTCAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
*
115919817 CACTGCAACTTCAGGGAGATAAGGTTTGTGATTT
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTT
115919851 CACCGATGTT
Statistics
Matches: 390, Mismatches: 58, Indels: 104
0.71 0.11 0.19
Matches are distributed among these distances:
38 3 0.01
42 3 0.01
43 4 0.01
44 132 0.34
45 86 0.22
47 3 0.01
51 155 0.40
52 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (51 bp):
CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
Found at i:115919498 original size:140 final size:140
Alignment explanation
Indices: 115918975--115919806 Score: 771
Period size: 140 Copynumber: 5.9 Consensus size: 140
115918965 ATTCGCTCCA
* * * ** * * * *
115918975 CTGCTCCACTGCGACTTCAGGGAGATAAGGTT-TATAACTTCAATATGCTCCACTGCAACTTTAG
1 CTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
* ** * * **** *
115919039 GGAGATAAGATTTGTGGCTTCAATCTGCTCCAAC-GCAACTTCAGGGAGATAAGATTCACCA-TG
66 GGAGATAAGACTTGTAACTTCAACCTGCTCC-ACTGCAACTTCAGGGAGATAAGGTTTGTGATTT
* **
115919102 GTAGATTTGAT
130 GTAGCTTCAAT
* * * * * * ** * * * * *
115919113 CCGACCTACTGCAACTTCAAAGG-TATAGGATT-TATAGCTTTAATCTGCTCTACTGCAACCTCA
1 CTGCCCCACTGCAACTTC-AGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCA
* * * ** * * * * *
115919176 GAGAGATAAGATTTGCTATCTTCAGTCTGCTCCGCTGTAACTTTAGGGAGATAAGGCTTGTTA-T
65 GGGAGATAAGACTTG-TAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATT
* * *
115919240 GGTAGATTTAAT
129 TGTAGCTTCAAT
* * * * * ** * * ** *
115919252 CTGACCTACTGCAACTTCAGAGG-TATAGGATTTG-TCGCTTTAATCCACTTCACTGCAACTTCA
1 CTGCCCCACTGCAACTTCAG-GGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCA
* * ** *
115919315 AGGAGATAAGATTTGTGATTTGTAACTTCAATTTGTTCCACTGCAACTTCAGGGAGATAAGGTTT
65 GGGAGAT-A-A-----GACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTT
*
115919380 GTGATTTGCAGCTTCAAT
123 GTGATTTGTAGCTTCAAT
* * * *
115919398 CTGCTCCACTGTAACTTTAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCATTGCAACTTCAG
1 CTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
* *
115919463 GGAGATAAGACTTGTAACTTCAACTTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGATTTG
66 GGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTG
*
115919528 TAGTTTCAAT
131 TAGCTTCAAT
* * * *
115919538 CTGCCCCACTACAAATTCAAGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTTAG
1 CTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
*
115919603 GGAGATAAGACTTGTAACTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTGATTTG
66 GGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTG
*
115919668 TAACTTCAAT
131 TAGCTTCAAT
* * *
115919678 TTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTACTCCACTGTAACTTCAG
1 CTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
115919743 GGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTT
66 GGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTT
115919807 CAACCTGCTC
Statistics
Matches: 582, Mismatches: 97, Indels: 28
0.82 0.14 0.04
Matches are distributed among these distances:
138 60 0.10
139 104 0.18
140 310 0.53
141 1 0.00
145 41 0.07
146 39 0.07
147 27 0.05
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (140 bp):
CTGCCCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
GGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTG
TAGCTTCAAT
Found at i:115919514 original size:191 final size:185
Alignment explanation
Indices: 115919302--115919838 Score: 488
Period size: 184 Copynumber: 2.9 Consensus size: 185
115919292 TAATCCACTT
* ** * *
115919302 CACTGCAACTTCA-AGGAGATAAGATTTGTGATTTGTAACTTCAATTTGTTCCACTGCAACTTCA
1 CACTGCAACTTCAGA-GAGATAAGATTTGTGATTTGTAACTTCAATCTGCCCCACTACAAATTCA
* * *
115919366 GGGAGATAAGGTTTGTGATTTGC-AGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGA-T
65 AGGAGATAA-------GATTCGCTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACT
* ** * *
115919429 TCGCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAA-GACTTGTAACTTCAACTTGCTC
123 T-G-TAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAATGACTTGTAACTTCAACTTGCCC
* **
115919493 CACTGCAACTTCAGAGAGATAAGGTTTGTGATTTGTAGTTTCAATCTGCCCCACTACAAATTCAA
1 CACTGCAACTTCAGAGAGATAAGATTTGTGATTTGTAACTTCAATCTGCCCCACTACAAATTCAA
* *
115919558 GGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTT
66 GGAGATAAGATTCGCTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTT
* * *
115919623 CAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAACTTCAATTTGCCC
131 CAACCTGCTCCACTGCAACTTCAGGGAGATAA------TGACTTGTAACTTCAACTTGCCC
* * * * * ** *
115919684 CACTGCAACTTCAGGGAGATAAGATTCGCT-A----T--CTTCAGTCTACTCCACTGTAACTTCA
1 CACTGCAACTTCAGAGAGATAAGATTTG-TGATTTGTAACTTCAATCTGCCCCACTACAAATTCA
* * * * ** * *
115919742 GGGAGATAAGACTT-G-TAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGAT
65 AGGAGATAAGA-TTCGCTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAAC
115919805 TTCAACCTGCTCCACTGCAACTTCAGGGAGATAA
129 TTCAACCTGCTCCACTGCAACTTCAGGGAGATAA
115919839 GGTTTGTGAT
Statistics
Matches: 293, Mismatches: 41, Indels: 31
0.80 0.11 0.08
Matches are distributed among these distances:
184 112 0.38
185 67 0.23
186 4 0.01
187 1 0.00
191 107 0.37
192 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (185 bp):
CACTGCAACTTCAGAGAGATAAGATTTGTGATTTGTAACTTCAATCTGCCCCACTACAAATTCAA
GGAGATAAGATTCGCTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTT
CAACCTGCTCCACTGCAACTTCAGGGAGATAATGACTTGTAACTTCAACTTGCCC
Found at i:115922936 original size:10 final size:10
Alignment explanation
Indices: 115922908--115922940 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
115922898 AATGTGATGC
115922908 ATGTAATGCT-
1 ATGTAATG-TG
115922918 ATGTAATGTG
1 ATGTAATGTG
115922928 ATGTAATGTG
1 ATGTAATGTG
115922938 ATG
1 ATG
115922941 CAAGTGCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 1 0.05
10 21 0.95
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.39
Consensus pattern (10 bp):
ATGTAATGTG
Found at i:115925625 original size:24 final size:22
Alignment explanation
Indices: 115925586--115925658 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
115925576 TTTCAAAATA
*
115925586 AATAAATAGAGTTTAAAATAAGGT
1 AATAAATA-AATTTAAAATAA-GT
*
115925610 ATATAAA-ACAATTTAAAACAAGT
1 A-ATAAATA-AATTTAAAATAAGT
* *
115925633 AATAAATAAATTTTAAATAAAT
1 AATAAATAAATTTAAAATAAGT
115925655 AATA
1 AATA
115925659 CCTAAAAACG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
22 20 0.49
23 4 0.10
24 12 0.29
25 5 0.12
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (22 bp):
AATAAATAAATTTAAAATAAGT
Found at i:115925793 original size:9 final size:9
Alignment explanation
Indices: 115925781--115925807 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
115925771 TACGTGAAAC
115925781 TTAAAATAA
1 TTAAAATAA
115925790 TTAAAATAA
1 TTAAAATAA
115925799 TTAAAATAA
1 TTAAAATAA
115925808 AAAATCAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TTAAAATAA
Found at i:115926723 original size:14 final size:13
Alignment explanation
Indices: 115926692--115926756 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 13
115926682 TTACAATTCA
*
115926692 TTTGTTTTCTTCAT
1 TTTGTTTT-TTCTT
115926706 TTTGTTTTTTCTT
1 TTTGTTTTTTCTT
*
115926719 GTTTGTCATTTTTCTC
1 -TTTGT--TTTTTCTT
115926735 TTTGTTTGTTTCTT
1 TTTGTTT-TTTCTT
115926749 TGTTGTTT
1 T-TTGTTT
115926757 GTATTGCTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
13 6 0.14
14 19 0.44
15 11 0.26
16 7 0.16
ACGTcount: A:0.03, C:0.11, G:0.12, T:0.74
Consensus pattern (13 bp):
TTTGTTTTTTCTT
Found at i:115928624 original size:23 final size:24
Alignment explanation
Indices: 115928598--115928645 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
115928588 CACTTAACTG
115928598 TATATTTACTTCCGATTT-AAGGA
1 TATATTTACTTCCGATTTAAAGGA
* *
115928621 TATATTTTCTTCCTATTTAAAGGA
1 TATATTTACTTCCGATTTAAAGGA
115928645 T
1 T
115928646 GAGAAGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.48
Consensus pattern (24 bp):
TATATTTACTTCCGATTTAAAGGA
Found at i:115932263 original size:14 final size:14
Alignment explanation
Indices: 115932246--115932279 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
115932236 TTAAATTTTA
115932246 TATTTTTTCTTATT
1 TATTTTTTCTTATT
115932260 TATTTTTTCTTATT
1 TATTTTTTCTTATT
*
115932274 AATTTT
1 TATTTT
115932280 AAAAAGCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (14 bp):
TATTTTTTCTTATT
Found at i:115932358 original size:24 final size:25
Alignment explanation
Indices: 115932297--115932358 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 25
115932287 TTGAAATGTG
115932297 TATTTGAAATGT-TTTATAATATATA
1 TATTTGAAAT-TATTTATAATATATA
* *
115932322 TTTTTTAAA--ATTTA-AATATATA
1 TATTTGAAATTATTTATAATATATA
115932344 TATTTGAAATTATTT
1 TATTTGAAATTATTT
115932359 TTAAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
22 15 0.50
23 4 0.13
24 4 0.13
25 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (25 bp):
TATTTGAAATTATTTATAATATATA
Found at i:115932409 original size:22 final size:22
Alignment explanation
Indices: 115932352--115932410 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
115932342 TATATTTGAA
*
115932352 ATTA-TTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAATATTAAAT
115932373 ATTATTTTTT-AAATATTAAAT
1 ATTATTTTTTAAAATATTAAAT
115932394 A-TATTTTTTAATAATAT
1 ATTATTTTTTAA-AATAT
115932411 AAAACATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.24
21 16 0.47
22 10 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTATTTTTTAAAATATTAAAT
Found at i:115932413 original size:21 final size:21
Alignment explanation
Indices: 115932352--115932404 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
115932342 TATATTTGAA
* *
115932352 ATTATTTTTAAAATTTTAAAT
1 ATTATTTTTTAAATATTAAAT
115932373 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
115932394 A-TATTTTTTAA
1 ATTATTTTTTAA
115932405 TAATATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:115932483 original size:21 final size:20
Alignment explanation
Indices: 115932459--115932517 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
115932449 TTATTATTAG
115932459 TTTTATAATATTTTAAATA-T
1 TTTTATAA-ATTTTAAATATT
*
115932479 TTTT-TAAATTTTAATATATA
1 TTTTATAAATTTTAA-ATATT
115932499 TTTTA-AACA-TTTAAATATT
1 TTTTATAA-ATTTTAAATATT
115932518 ATTAATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
18 7 0.21
19 10 0.30
20 15 0.45
21 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTATAAATTTTAAATATT
Found at i:115932497 original size:19 final size:18
Alignment explanation
Indices: 115932468--115932516 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
115932458 GTTTTATAAT
*
115932468 ATTTTAAATATTTTTTAA
1 ATTTTAAATATATTTTAA
115932486 ATTTTAATATATATTTTAA
1 ATTTTAA-ATATATTTTAA
*
115932505 ACATTTAAATAT
1 A-TTTTAAATAT
115932517 TATTAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 7 0.26
19 15 0.56
20 5 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAAATATATTTTAA
Found at i:115932617 original size:22 final size:23
Alignment explanation
Indices: 115932564--115932609 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
115932554 TATATTTTTA
*
115932564 TAAACATTTAAATATTATTAATT
1 TAAACATTTAAATATTAGTAATT
115932587 TAAACATTTAAAT-TTAGTAATT
1 TAAACATTTAAATATTAGTAATT
115932609 T
1 T
115932610 TTATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
TAAACATTTAAATATTAGTAATT
Found at i:115932617 original size:57 final size:59
Alignment explanation
Indices: 115932493--115932619 Score: 181
Period size: 57 Copynumber: 2.2 Consensus size: 59
115932483 TAAATTTTAA
*
115932493 TATATATTTTAAACATTTAAATATTATTAATTTTTACAAAGTGATTAAATTTAGTAATTTT
1 TATATTTTTTAAACATTTAAATATTATTAA-TTTTACAAAGT-ATTAAATTTAGTAATTTT
115932554 TATATTTTTATAAACATTTAAATATTATTAA-TTTA-AACA-T-TTAAATTTAGTAATTTT
1 TATATTTTT-TAAACATTTAAATATTATTAATTTTACAA-AGTATTAAATTTAGTAATTTT
115932611 TATATTTTT
1 TATATTTTT
115932620 GAGATAGGAA
Statistics
Matches: 63, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
57 26 0.41
59 3 0.05
60 5 0.08
61 8 0.13
62 21 0.33
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (59 bp):
TATATTTTTTAAACATTTAAATATTATTAATTTTACAAAGTATTAAATTTAGTAATTTT
Found at i:115933476 original size:32 final size:33
Alignment explanation
Indices: 115933434--115933547 Score: 99
Period size: 33 Copynumber: 3.5 Consensus size: 33
115933424 TACCCAAATG
* *
115933434 GTACAACTTGGAATGGTTATGTACACTTTGTGT
1 GTACAACTTGGAAAGGTTAGGTACACTTTGTGT
* *
115933467 GTAC-ACTTGGAAAGGTTAGGTATACTTTGCGT
1 GTACAACTTGGAAAGGTTAGGTACACTTTGTGT
* * * ** *
115933499 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAACT-TGGAAAGGTTAGGTACACTTTGTGT
115933532 GTAGC-ACTTGGAAAGG
1 GTA-CAACTTGGAAAGG
115933548 AATACACACT
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
32 28 0.42
33 36 0.55
34 2 0.03
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.32
Consensus pattern (33 bp):
GTACAACTTGGAAAGGTTAGGTACACTTTGTGT
Found at i:115933547 original size:33 final size:32
Alignment explanation
Indices: 115933458--115933549 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 32
115933448 GGTTATGTAC
**
115933458 ACTTTGTGTGTACACTTGGAAAGGTTAGGTAT
1 ACTTTGTGTGTACACTTGGAAAGGAAAGGTAT
* * *
115933490 ACTTTGCGTATAC-CATATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACAC-T-TGGAAAGGAAAGGTAT
115933523 ACTTTGTGTGTAGCACTTGGAAAGGAA
1 ACTTTGTGTGTA-CACTTGGAAAGGAA
115933550 TACACACTTC
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
31 1 0.02
32 12 0.25
33 32 0.67
34 2 0.04
35 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (32 bp):
ACTTTGTGTGTACACTTGGAAAGGAAAGGTAT
Found at i:115934404 original size:21 final size:21
Alignment explanation
Indices: 115934378--115934417 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
115934368 CCCCTGTATC
*
115934378 CTTAAAAATGGTGAAAAATGG
1 CTTAAAAATAGTGAAAAATGG
115934399 CTTAAAAATAGTGAAAAAT
1 CTTAAAAATAGTGAAAAAT
115934418 CAGTTTACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.05, G:0.17, T:0.25
Consensus pattern (21 bp):
CTTAAAAATAGTGAAAAATGG
Found at i:115937011 original size:29 final size:29
Alignment explanation
Indices: 115936938--115937011 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
115936928 TAAAATTTTT
*
115936938 AAATTTTCTAAAAATTAAATAAAAGTAGATA
1 AAATTTTC-AAAAA-TAAATAAAAGTAGAGA
*
115936969 AAATTTTTAAAAATAAAT-AAAGTGAGAGA
1 AAATTTTCAAAAATAAATAAAAGT-AGAGA
*
115936998 AAATTATCAAAAAT
1 AAATTTTCAAAAAT
115937012 TATTTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 5 0.13
29 21 0.55
30 5 0.13
31 7 0.18
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (29 bp):
AAATTTTCAAAAATAAATAAAAGTAGAGA
Found at i:115943169 original size:5 final size:6
Alignment explanation
Indices: 115943155--115943179 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
115943145 CTAATCATTG
115943155 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
115943180 GTTGACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:115943393 original size:20 final size:19
Alignment explanation
Indices: 115943370--115943407 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
115943360 ATAAAAGCAT
115943370 AAAAATTCAAAAAACTATAA
1 AAAAATTCAAAAAA-TATAA
*
115943390 AAAAATTTAAAAAATATA
1 AAAAATTCAAAAAATATA
115943408 TATCCTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATTCAAAAAATATAA
Found at i:115944032 original size:18 final size:18
Alignment explanation
Indices: 115943983--115944032 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
115943973 CTCTTTTATG
115943983 ATTTTTATTT-TTTTTAC
1 ATTTTTATTTATTTTTAC
*
115944000 ATTTTTA-TAACTTTTTGA-
1 ATTTTTATTTA-TTTTT-AC
115944018 ATTTTTATTTATTTT
1 ATTTTTATTTATTTT
115944033 CAAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 16 0.59
19 3 0.11
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (18 bp):
ATTTTTATTTATTTTTAC
Found at i:115947701 original size:16 final size:16
Alignment explanation
Indices: 115947680--115947715 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
115947670 GAGGATTACA
115947680 CTTTGGGTAAAGTTCC
1 CTTTGGGTAAAGTTCC
115947696 CTTTGGGTAAAGTTCC
1 CTTTGGGTAAAGTTCC
115947712 CTTT
1 CTTT
115947716 TTTTTTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (16 bp):
CTTTGGGTAAAGTTCC
Found at i:115954821 original size:32 final size:32
Alignment explanation
Indices: 115954780--115954847 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
115954770 TAGATTTAAA
115954780 TTAAGTTCCGTTGAAATATACGTAAAAGTTTT
1 TTAAGTTCCGTTGAAATATACGTAAAAGTTTT
*
115954812 TTAAGTTCCGTTGAAATATATGTAAAAGTTTT
1 TTAAGTTCCGTTGAAATATACGTAAAAGTTTT
115954844 TTAA
1 TTAA
115954848 AAAATTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (32 bp):
TTAAGTTCCGTTGAAATATACGTAAAAGTTTT
Found at i:115959082 original size:75 final size:75
Alignment explanation
Indices: 115958963--115959134 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
115958953 CATGGCAAAG
** *
115958963 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
115959022 CCATACTGAGC
65 CCATACCGAGC
115959033 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
115959098 CATACCGAGT
66 CATACCGAGC
***
115959108 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
115959135 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:115959101 original size:35 final size:35
Alignment explanation
Indices: 115958966--115959132 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
115958956 GGCAAAGTGT
* **
115958966 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
115959001 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
115959036 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
115959076 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
115959112 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
115959133 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:115959124 original size:36 final size:35
Alignment explanation
Indices: 115959062--115959132 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
115959052 ATTATCAAAT
* *
115959062 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
115959097 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
115959133 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:115966589 original size:75 final size:75
Alignment explanation
Indices: 115966470--115966640 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
115966460 CATGGCAAAG
** *
115966470 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
115966529 CCATACTGAGC
65 CCATACCGAGC
115966540 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
115966605 CATACCGAGT
66 CATACCGAGC
***
115966615 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
115966641 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:115966608 original size:35 final size:35
Alignment explanation
Indices: 115966473--115966638 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
115966463 GGCAAAGTGT
* **
115966473 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
115966508 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
115966543 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
115966583 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
115966618 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
115966639 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:115972543 original size:20 final size:19
Alignment explanation
Indices: 115972518--115972556 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
115972508 CCCAGACCCC
115972518 AAACAAAATAAATCCCAAAT
1 AAACAAAATAAAT-CCAAAT
**
115972538 AAACAATTTAAATCCAAAT
1 AAACAAAATAAATCCAAAT
115972557 TATTACAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (19 bp):
AAACAAAATAAATCCAAAT
Found at i:115974314 original size:21 final size:21
Alignment explanation
Indices: 115974270--115974311 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
115974260 TTTTACACAC
115974270 ATTTCAAAATTCTATTTATTT
1 ATTTCAAAATTCTATTTATTT
*
115974291 ATTTTAAATATTCTATTTATT
1 ATTTCAAA-ATTCTATTTATT
115974312 ATTCATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTCAAAATTCTATTTATTT
Found at i:115978877 original size:137 final size:137
Alignment explanation
Indices: 115978631--115978917 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
115978621 TATTGGGCCT
**
115978631 AAGCCCATTCAGGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
115978696 AGCCCCTTATTCAGCTAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
115978761 CATATGC
131 CATATGC
* *
115978768 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTTAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
115978833 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
115978898 CATATGC
131 CATATGC
115978905 AAGCCCATTTGGG
1 AAGCCCATTTGGG
115978918 GAGACTACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:115980721 original size:26 final size:26
Alignment explanation
Indices: 115980692--115980801 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
115980682 CATGAAATTC
115980692 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
115980718 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
115980744 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
115980770 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
115980796 TTATCA
1 TTATCA
115980802 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:115992111 original size:15 final size:17
Alignment explanation
Indices: 115992081--115992122 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
115992071 CGTACAATGG
115992081 CATCAA-TCATGCAATA
1 CATCAATTCATGCAATA
115992097 C-TCAATTCATG-AATA
1 CATCAATTCATGCAATA
*
115992112 CATCATTTCAT
1 CATCAATTCAT
115992123 ACCATACTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (17 bp):
CATCAATTCATGCAATA
Found at i:115992427 original size:40 final size:37
Alignment explanation
Indices: 115992383--115992468 Score: 91
Period size: 40 Copynumber: 2.2 Consensus size: 37
115992373 GATTAATACT
* **
115992383 CAGTGCCTCATTGGATAATTCGAAGTATAAAATTGACACC
1 CAGTGCCTCATCGGATAAACCGAAG--T-AAATTGACACC
* * *
115992423 CAGTGTCTCATCGGTTAAACCGAAGTAAATTGGCACC
1 CAGTGCCTCATCGGATAAACCGAAGTAAATTGACACC
115992460 CAGTGCCTC
1 CAGTGCCTC
115992469 GTCAAATAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
37 18 0.46
38 1 0.03
40 20 0.51
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (37 bp):
CAGTGCCTCATCGGATAAACCGAAGTAAATTGACACC
Found at i:115993414 original size:13 final size:14
Alignment explanation
Indices: 115993381--115993421 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
115993371 CTTGGTCTCC
115993381 TTCTTTCTCCTTCT
1 TTCTTTCTCCTTCT
115993395 TTCTTTC-CCTT-T
1 TTCTTTCTCCTTCT
*
115993407 TTCTTT-TCTTTCT
1 TTCTTTCTCCTTCT
115993420 TT
1 TT
115993422 TCCTTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 10 0.42
13 7 0.29
14 7 0.29
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
TTCTTTCTCCTTCT
Found at i:115993473 original size:13 final size:14
Alignment explanation
Indices: 115993455--115993483 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
115993445 TCTTTCTTTT
115993455 TTTGTTTTATT-TA
1 TTTGTTTTATTATA
115993468 TTTGTTTTATTATA
1 TTTGTTTTATTATA
115993482 TT
1 TT
115993484 ATAATATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (14 bp):
TTTGTTTTATTATA
Found at i:115995500 original size:18 final size:17
Alignment explanation
Indices: 115995475--115995510 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
115995465 AATTTTTTTC
115995475 TATTTTTTTATGAAAAA
1 TATTTTTTTATGAAAAA
*
115995492 TATTTTTTTATGGAAAA
1 TATTTTTTTATGAAAAA
115995509 TA
1 TA
115995511 AAAAAGTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (17 bp):
TATTTTTTTATGAAAAA
Found at i:115995646 original size:2 final size:2
Alignment explanation
Indices: 115995639--115995667 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
115995629 TTTTGAAATA
115995639 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
115995668 TATACAGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:115999964 original size:8 final size:8
Alignment explanation
Indices: 115999951--115999978 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
115999941 ATTGATTAAC
115999951 TAAAATTT
1 TAAAATTT
115999959 TAAAATTT
1 TAAAATTT
115999967 TAAAATTT
1 TAAAATTT
115999975 TAAA
1 TAAA
115999979 CACAATAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
TAAAATTT
Found at i:116006928 original size:40 final size:40
Alignment explanation
Indices: 116006849--116007025 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 40
116006839 CGGATGATAA
* * **
116006849 CCGGACTAAGATCCGAAGGCATTCGTGC-GAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTAT-CTGAGTTGCTATAT
* * *
116006889 CCGGGCTATGTCCCGAAGGCATTTATACT-AG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTAT-CTGAGTTG-CTATAT
* *
116006929 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATCTGAGTTGCTATAT
* * *
116006969 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATCTGAGTTGCTATAT
116007009 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
116007026 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 16 0.14
40 99 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATCTGAGTTGCTATAT
Found at i:116007293 original size:22 final size:22
Alignment explanation
Indices: 116007253--116007294 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
116007243 GAATGTGCAT
*
116007253 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
116007275 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
116007295 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:116008815 original size:26 final size:26
Alignment explanation
Indices: 116008778--116008913 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
116008768 TGATACAAAT
* *
116008778 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
116008804 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
116008830 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
116008856 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
116008882 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
116008908 TGATAA
1 TGATAA
116008914 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:116010428 original size:26 final size:26
Alignment explanation
Indices: 116010399--116010448 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
116010389 TACAATTTTA
116010399 CCCTAGGAGATAAATT-ACCGAAATAC
1 CCCTAGG-GATAAATTGACCGAAATAC
* *
116010425 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCGAAAT
116010449 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (26 bp):
CCCTAGGGATAAATTGACCGAAATAC
Found at i:116013578 original size:12 final size:12
Alignment explanation
Indices: 116013561--116013589 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
116013551 GAGTTAAAAG
116013561 AGTTGAAAGCTC
1 AGTTGAAAGCTC
116013573 AGTTGAAAGCTC
1 AGTTGAAAGCTC
116013585 AGTTG
1 AGTTG
116013590 CAAGAGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (12 bp):
AGTTGAAAGCTC
Found at i:116017206 original size:40 final size:40
Alignment explanation
Indices: 116017140--116017303 Score: 201
Period size: 40 Copynumber: 4.1 Consensus size: 40
116017130 GACTAAGATT
* * * * *
116017140 CGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTATGTCC
1 CGAAGGCATTTGTGTGAGTTGTTATATCCAGGCTAAGACC
* *
116017180 CGAAGGCATTTATGCT-AG-TGATTATATCCGGGCTAAGACC
1 CGAAGGCATTTGTG-TGAGTTG-TTATATCCAGGCTAAGACC
*
116017220 CGAAGGCATTTGTGTGAGTTGCTATATCCAGGCTAAGACC
1 CGAAGGCATTTGTGTGAGTTGTTATATCCAGGCTAAGACC
116017260 CGAAGGCATTTGTGTGAGTTGTTATATCC-GGCTAA-ATCC
1 CGAAGGCATTTGTGTGAGTTGTTATATCCAGGCTAAGA-CC
116017299 CGAAG
1 CGAAG
116017304 ATACTTGGGT
Statistics
Matches: 108, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
38 1 0.01
39 16 0.15
40 89 0.82
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CGAAGGCATTTGTGTGAGTTGTTATATCCAGGCTAAGACC
Found at i:116017265 original size:80 final size:79
Alignment explanation
Indices: 116017140--116017303 Score: 226
Period size: 80 Copynumber: 2.1 Consensus size: 79
116017130 GACTAAGATT
* *
116017140 CGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTATGTCCCGAAGGCATTTATGCT-AG-TGATT
1 CGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGCATTTATG-TGAGTTG-TT
116017203 ATATCCGGGCTAAGA-CC
64 ATATCC-GGCTAA-ATCC
* * *
116017220 CGAAGGCATTTGTGTGAGTTGCTATATCCAGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTTAT
1 CGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGCATTTATGTGAGTTGTTAT
116017285 ATCCGGCTAAATCC
66 ATCCGGCTAAATCC
116017299 CGAAG
1 CGAAG
116017304 ATACTTGGGT
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
78 1 0.01
79 14 0.18
80 59 0.78
81 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (79 bp):
CGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGCATTTATGTGAGTTGTTAT
ATCCGGCTAAATCC
Found at i:116017571 original size:22 final size:22
Alignment explanation
Indices: 116017531--116017572 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
116017521 GAATGTGCAT
*
116017531 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
116017553 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
116017573 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:116018873 original size:41 final size:41
Alignment explanation
Indices: 116018757--116018892 Score: 165
Period size: 41 Copynumber: 3.4 Consensus size: 41
116018747 AAAACATCGG
*
116018757 CACCCAGTGCCTCATCGAA-TAATTTGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAACTAATCTGAAGTAATAAATTGA
* * * * *
116018797 CACCGAGTGTCTCATC-AGCTAAACTGAAG---TAAATTGG
1 CACCCAGTGCCTCATCGAACTAATCTGAAGTAATAAATTGA
*
116018834 CACCCAGTGCCTCATCGAACTAATCCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAACTAATCTGAAGTAATAAATTGA
*
116018875 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
116018893 CTCGAAGTCG
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
37 21 0.27
38 10 0.13
39 1 0.01
40 22 0.28
41 24 0.31
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
CACCCAGTGCCTCATCGAACTAATCTGAAGTAATAAATTGA
Found at i:116024262 original size:12 final size:12
Alignment explanation
Indices: 116024245--116024269 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
116024235 ATTTACCACA
116024245 TGAAAAATATTT
1 TGAAAAATATTT
116024257 TGAAAAATATTT
1 TGAAAAATATTT
116024269 T
1 T
116024270 TTTTCAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TGAAAAATATTT
Found at i:116035416 original size:24 final size:26
Alignment explanation
Indices: 116035388--116035437 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
116035378 CTTATTTCAT
*
116035388 TAAAT-AAA-AAATTTTAAAATATAA
1 TAAATCAAATAAATTTAAAAATATAA
*
116035412 TAAATCAAATACATTTAAAAATATAA
1 TAAATCAAATAAATTTAAAAATATAA
116035438 AAACAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 3 0.14
26 14 0.64
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (26 bp):
TAAATCAAATAAATTTAAAAATATAA
Found at i:116043370 original size:13 final size:13
Alignment explanation
Indices: 116043352--116043392 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
116043342 GTTTATTTTA
*
116043352 TTGAAAATGATTT
1 TTGAAAATAATTT
116043365 TTGAAAAATAATTT
1 TTG-AAAATAATTT
116043379 TTAGAAAATAATTT
1 TT-GAAAATAATTT
116043393 ATTTTTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 3 0.12
14 21 0.84
15 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (13 bp):
TTGAAAATAATTT
Found at i:116048780 original size:30 final size:30
Alignment explanation
Indices: 116048746--116048806 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
116048736 ATTATAGCAA
*
116048746 TAGTGATTTGTATTAAATATAATATTTTCT
1 TAGTGATTCGTATTAAATATAATATTTTCT
116048776 TAGTGATTCGTATTAAATATAATATTTTCT
1 TAGTGATTCGTATTAAATATAATATTTTCT
116048806 T
1 T
116048807 CATTCACAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (30 bp):
TAGTGATTCGTATTAAATATAATATTTTCT
Found at i:116052491 original size:133 final size:133
Alignment explanation
Indices: 116052253--116052519 Score: 498
Period size: 133 Copynumber: 2.0 Consensus size: 133
116052243 GATCTATGCA
116052253 TGTGGGTATTTTCGCACTGCTAGCCGCTTGTATAGGTCGATGGGACCTGAATATATGGAAAATAT
1 TGTGGGTATTTTCGCACTGCTAGCCGCTTGTATAGGTCGATGGGACCTGAATATATGGAAAATAT
*
116052318 ATCCATATTCTACATATTGTGATTACTAAATACGAGAACTGAAACATGCTCCTGATAGTGTTTGC
66 ATCCATATTCTACATATTGTGATTACTAAATACGAGAACTGAAACATGCTCCTAATAGTGTTTGC
116052383 CAT
131 CAT
* *
116052386 TGTGGGTATTTTCGCACTGCTAGCCGCTTGTATAGGTTGATGGGACCTGACTATATGGAAAATAT
1 TGTGGGTATTTTCGCACTGCTAGCCGCTTGTATAGGTCGATGGGACCTGAATATATGGAAAATAT
*
116052451 ATCCATATTCTACATATTGTGATTACTAAATACGGGAACTGAAACATGCTCCTAATAGTGTTTGC
66 ATCCATATTCTACATATTGTGATTACTAAATACGAGAACTGAAACATGCTCCTAATAGTGTTTGC
116052516 CAT
131 CAT
116052519 T
1 T
116052520 ATGGAGTTGG
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
133 130 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (133 bp):
TGTGGGTATTTTCGCACTGCTAGCCGCTTGTATAGGTCGATGGGACCTGAATATATGGAAAATAT
ATCCATATTCTACATATTGTGATTACTAAATACGAGAACTGAAACATGCTCCTAATAGTGTTTGC
CAT
Found at i:116072338 original size:24 final size:24
Alignment explanation
Indices: 116072307--116072361 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
116072297 TTTGAGTCCA
*
116072307 TTTATTTTT-CGATTTG-TTTTTATT
1 TTTATTTTTGC-A-TTGCTTTTTATC
116072331 TTTATTTTTGCATTGCTTTTTATC
1 TTTATTTTTGCATTGCTTTTTATC
116072355 TTTATTT
1 TTTATTT
116072362 ATCATTTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 3 0.11
24 24 0.86
25 1 0.04
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (24 bp):
TTTATTTTTGCATTGCTTTTTATC
Found at i:116077501 original size:24 final size:25
Alignment explanation
Indices: 116077465--116077514 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
116077455 GGGGAGGGTT
116077465 ATTATTATTATTTAAAATTAAAATA
1 ATTATTATTATTTAAAATTAAAATA
* *
116077490 ATTATT-TTATTTAATATTAATATA
1 ATTATTATTATTTAAAATTAAAATA
116077514 A
1 A
116077515 AATTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTATTATTATTTAAAATTAAAATA
Found at i:116078140 original size:14 final size:14
Alignment explanation
Indices: 116078121--116078165 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
116078111 TTTTATATGT
116078121 TATAAATAACAGAA
1 TATAAATAACAGAA
*
116078135 TAT-AA-AAC-G-T
1 TATAAATAACAGAA
116078145 TATAAATAACAGAA
1 TATAAATAACAGAA
116078159 TATAAAT
1 TATAAAT
116078166 CATTATAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
10 3 0.12
11 3 0.12
12 6 0.24
13 3 0.12
14 10 0.40
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (14 bp):
TATAAATAACAGAA
Found at i:116078146 original size:24 final size:24
Alignment explanation
Indices: 116078119--116078174 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
116078109 AATTTTATAT
116078119 GTTATAAATAACAGAATATAAAAC
1 GTTATAAATAACAGAATATAAAAC
*
116078143 GTTATAAATAACAGAATATAAATC
1 GTTATAAATAACAGAATATAAAAC
*
116078167 ATTATAAA
1 GTTATAAA
116078175 CTTATAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (24 bp):
GTTATAAATAACAGAATATAAAAC
Found at i:116081740 original size:15 final size:15
Alignment explanation
Indices: 116081717--116081754 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
116081707 GTGCCTCGTT
*
116081717 AAAACCTTATTAGGA
1 AAAATCTTATTAGGA
116081732 AAAATCTTATTAGGA
1 AAAATCTTATTAGGA
116081747 AAAATCTT
1 AAAATCTT
116081755 GTGGGATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (15 bp):
AAAATCTTATTAGGA
Found at i:116089033 original size:30 final size:30
Alignment explanation
Indices: 116088992--116089054 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
116088982 CAGAGGACAT
* *
116088992 ACGACCGTGTAACATAACCTTGTGTCACAC
1 ACGACCATGTAACATAACCGTGTGTCACAC
116089022 ACGACCATGTAACATAACCGTGTGTCACAC
1 ACGACCATGTAACATAACCGTGTGTCACAC
116089052 ACG
1 ACG
116089055 GCTGAGACAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (30 bp):
ACGACCATGTAACATAACCGTGTGTCACAC
Found at i:116094132 original size:26 final size:26
Alignment explanation
Indices: 116094061--116094133 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 26
116094051 TTAACTTTCA
*
116094061 AAAATAATAAAAATTTGATATAATCCTTT
1 AAAATAAT-AAAA-TT-ATATAATACTTT
116094090 AAAA-AAGTATAAA-TATATAA-ACTATT
1 AAAATAA-TA-AAATTATATAATACT-TT
116094116 AAAATAATAAAATTATAT
1 AAAATAATAAAATTATAT
116094134 TTTTACTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
25 5 0.13
26 19 0.50
27 3 0.08
28 3 0.08
29 8 0.21
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (26 bp):
AAAATAATAAAATTATATAATACTTT
Found at i:116101528 original size:19 final size:20
Alignment explanation
Indices: 116101504--116101548 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
116101494 AATTTGGGAT
116101504 AAATTT-GAAACAAA-TAAAA
1 AAATTTGGAAA-AAAGTAAAA
*
116101523 AAATTTGGAAAAAAGTAGAA
1 AAATTTGGAAAAAAGTAAAA
116101543 AAATTT
1 AAATTT
116101549 AAAAATAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.62, C:0.02, G:0.11, T:0.24
Consensus pattern (20 bp):
AAATTTGGAAAAAAGTAAAA
Found at i:116112235 original size:28 final size:29
Alignment explanation
Indices: 116112203--116112325 Score: 135
Period size: 29 Copynumber: 4.3 Consensus size: 29
116112193 GTGAGCATGA
* *
116112203 ATAT-AATGTGATTTCGGCCGGATGGGCC
1 ATATGAATGTGAATTGGGCCGGATGGGCC
* * **
116112231 ATATAAATGAG-ATTGGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCGGATGGGCC
* *
116112259 ATATGAATGTGAATTGGGTCTGATGGGCC
1 ATATGAATGTGAATTGGGCCGGATGGGCC
116112288 ATATGAACT-TGAATTGGGCCGGATGGGCC
1 ATATGAA-TGTGAATTGGGCCGGATGGGCC
*
116112317 ATATAAATG
1 ATATGAATG
116112326 AGTTGGGCCT
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
28 27 0.34
29 51 0.65
30 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCGGATGGGCC
Found at i:116112244 original size:29 final size:28
Alignment explanation
Indices: 116112218--116112347 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 28
116112208 ATGTGATTTC
116112218 GGCCGGATGGGCCATATAAATGAGATTG
1 GGCCGGATGGGCCATATAAATGAGATTG
** * *
116112246 GGCCTAATGGGCCATATGAATGTGAATTG
1 GGCCGGATGGGCCATATAAATGAG-ATTG
* * *
116112275 GGTCTGATGGGCCATATGAACTTGA-ATTG
1 GGCCGGATGGGCCATAT-AA-ATGAGATTG
116112304 GGCCGGATGGGCCATATAAATGAG-TTG
1 GGCCGGATGGGCCATATAAATGAGATTG
*
116112331 GGCC-TAGTGGGCCATAT
1 GGCCGGA-TGGGCCATAT
116112348 GTATGTATGT
Statistics
Matches: 84, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.01
27 20 0.24
28 22 0.26
29 38 0.45
30 1 0.01
31 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.25
Consensus pattern (28 bp):
GGCCGGATGGGCCATATAAATGAGATTG
Found at i:116116138 original size:40 final size:40
Alignment explanation
Indices: 116116093--116116169 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
116116083 CAAAACAATA
**
116116093 ATAATATTTAAAAGAGA-AATATATGACATATATACATAAG
1 ATAATATGCAAAA-AGATAATATATGACATATATACATAAG
*
116116133 ATAATATGCAAAAATATAATATATGACATATATACAT
1 ATAATATGCAAAAAGATAATATATGACATATATACAT
116116170 GATGTATGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (40 bp):
ATAATATGCAAAAAGATAATATATGACATATATACATAAG
Found at i:116116182 original size:35 final size:38
Alignment explanation
Indices: 116116110--116116187 Score: 108
Period size: 40 Copynumber: 2.1 Consensus size: 38
116116100 TTAAAAGAGA
116116110 AATATATGACATATATACATAAGATAATATGCAAAAATAT
1 AATATATGACATATATACAT-AGATAATATG-AAAAATAT
*
116116150 AATATATGACATATATACAT-GAT-GTATG-AAAATAT
1 AATATATGACATATATACATAGATAATATGAAAAATAT
116116185 AAT
1 AAT
116116188 GCCTAATAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
35 10 0.27
37 4 0.11
38 3 0.08
40 20 0.54
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (38 bp):
AATATATGACATATATACATAGATAATATGAAAAATAT
Found at i:116116578 original size:33 final size:30
Alignment explanation
Indices: 116116531--116116603 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 30
116116521 GGTACTAAGA
* *
116116531 AAAAAATATATATATATAAATAATAGTATT
1 AAAATATATATATATATAAATAATAATATT
* *
116116561 AGAAATCATATAGTATATATAACTGATAATATT
1 A-AAAT-ATATA-TATATATAAATAATAATATT
116116594 AAAATATATA
1 AAAATATATA
116116604 CATAATATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 1 0.03
31 8 0.22
32 9 0.25
33 18 0.50
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (30 bp):
AAAATATATATATATATAAATAATAATATT
Found at i:116116814 original size:3 final size:3
Alignment explanation
Indices: 116116806--116116850 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
116116796 ACAAGGATAT
116116806 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
116116851 TTGAAACACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:116116970 original size:3 final size:3
Alignment explanation
Indices: 116116956--116117014 Score: 100
Period size: 3 Copynumber: 19.3 Consensus size: 3
116116946 AATGTATTTC
*
116116956 AAT AAC AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
116117002 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
116117015 TTGAAATGCA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:116117618 original size:13 final size:13
Alignment explanation
Indices: 116117600--116117626 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
116117590 AAAGGTAATT
116117600 TTTTTTTTGTATA
1 TTTTTTTTGTATA
116117613 TTTTTTTTGTATA
1 TTTTTTTTGTATA
116117626 T
1 T
116117627 ATATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTTTGTATA
Found at i:116118801 original size:51 final size:51
Alignment explanation
Indices: 116118725--116118836 Score: 179
Period size: 51 Copynumber: 2.2 Consensus size: 51
116118715 ATTACATTTA
*
116118725 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACAACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACAACTTATCACTTG
* * *
116118776 TCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACAACTTATCACTTG
*
116118827 TCACTGATCA
1 TCACTTATCA
116118837 GAAGTACTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (51 bp):
TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACAACTTATCACTTG
Found at i:116126533 original size:51 final size:51
Alignment explanation
Indices: 116126457--116126568 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 51
116126447 ATTACATTTA
*
116126457 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAACTAAAGCTACCACTTATCACTTG
* *
116126508 TCACTTATCACTGATCAGATAAGTGTAACTGAGGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAACTAAAGCTACCACTTATCACTTG
*
116126559 TCACTGATCA
1 TCACTTATCA
116126569 GAAGTACTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (51 bp):
TCACTTATCACTGATCAGATAAGTGTAACTAAAGCTACCACTTATCACTTG
Found at i:116129154 original size:15 final size:15
Alignment explanation
Indices: 116129136--116129166 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
116129126 TATGAAAGGG
*
116129136 GTGATAATGATAATA
1 GTGACAATGATAATA
116129151 GTGACAATGATAATA
1 GTGACAATGATAATA
116129166 G
1 G
116129167 AAGCCCATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (15 bp):
GTGACAATGATAATA
Found at i:116129721 original size:100 final size:99
Alignment explanation
Indices: 116129548--116129737 Score: 308
Period size: 100 Copynumber: 1.9 Consensus size: 99
116129538 ACCCCCTTCT
* * *
116129548 ATTTTGTAAAATTACTTTGAATGCCTTTTAAGTTTTAATTTTTTATTTTGATATTATAATTAGTG
1 ATTTTGTAAAATTACTTTGAAGGCCCTTTAAGTTTTAATTTTTTAATTTGATATTATAATTAGTG
*
116129613 CTTAAAAAAAGGAAAAATTTGTGTTCTCCCCTAA
66 CTTAAAAAAAAGAAAAATTTGTGTTCTCCCCTAA
116129647 ATTTTGTAAAATTACTTTTGAAGGCCCTTTAAGTTTTAATTTTTTAATTTGATATTATAATTAGT
1 ATTTTGTAAAATTAC-TTTGAAGGCCCTTTAAGTTTTAATTTTTTAATTTGATATTATAATTAGT
* * *
116129712 GTTTGAAAAAAAGATAAATTTGTGTT
65 GCTTAAAAAAAAGAAAAATTTGTGTT
116129738 TGACCCCCCA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 15 0.18
100 68 0.82
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (99 bp):
ATTTTGTAAAATTACTTTGAAGGCCCTTTAAGTTTTAATTTTTTAATTTGATATTATAATTAGTG
CTTAAAAAAAAGAAAAATTTGTGTTCTCCCCTAA
Found at i:116129960 original size:61 final size:61
Alignment explanation
Indices: 116129842--116129962 Score: 154
Period size: 61 Copynumber: 2.0 Consensus size: 61
116129832 ATATAAAGTA
* * * * * *
116129842 GTATCTAATTATTAATTTGGTAAACATAAAGTTTAATATTTGCAATATCTAAGTACAAATC
1 GTATCTAAATATTAATTAGGTAAAAATAAAGTTAAATAATTACAATATCTAAGTACAAATC
* *
116129903 GTATCTAAATATTAATTAGGTAAAAAATAAAGTTAAATAATTATACTATCTAA-TACAAAT
1 GTATCTAAATATTAATTAGGT-AAAAATAAAGTTAAATAATTACAATATCTAAGTACAAAT
116129963 TGAGCATTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
61 26 0.51
62 25 0.49
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.37
Consensus pattern (61 bp):
GTATCTAAATATTAATTAGGTAAAAATAAAGTTAAATAATTACAATATCTAAGTACAAATC
Found at i:116131997 original size:20 final size:20
Alignment explanation
Indices: 116131971--116132016 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
116131961 CAAAGAACAG
*
116131971 AAAAAAAACATAAACTGAAAT
1 AAAAAATAC-TAAACTGAAAT
* *
116131992 AAAAAATACTCAATTGAAAT
1 AAAAAATACTAAACTGAAAT
116132012 AAAAA
1 AAAAA
116132017 TAAAATCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.70, C:0.09, G:0.04, T:0.17
Consensus pattern (20 bp):
AAAAAATACTAAACTGAAAT
Found at i:116135780 original size:153 final size:153
Alignment explanation
Indices: 116135455--116135765 Score: 577
Period size: 153 Copynumber: 2.0 Consensus size: 153
116135445 ACCCTTAACC
* * *
116135455 TTTTAAAAAGAGTTAAATTTAACTATTAACCTTTTAGATTGAGTTGTGATTTTTTAACGGGAACG
1 TTTTAAAAAGAGTTGAATTTAACTATCAACCTTTTAGATTGAGTTGTGATTTTTTAACGGGAACA
*
116135520 CTGACTAAAACATTAAAATTTTAAACATGGAAGGCCGCATGACAAACTACATTAATTTATGCTAA
66 CTGACTAAAACATTAAAATTCTAAACATGGAAGGCCGCATGACAAACTACATTAATTTATGCTAA
116135585 TCTTTTTATAAAAATTATGAACT
131 TCTTTTTATAAAAATTATGAACT
*
116135608 TTTTAAAAAGAGTTGAATTTAACTATCAACCTTTTAGATTGAGTTGTGATTTTTTAACGGGAATA
1 TTTTAAAAAGAGTTGAATTTAACTATCAACCTTTTAGATTGAGTTGTGATTTTTTAACGGGAACA
116135673 CTGACTAAAACATTAAAATTCTAAACATGGAAGGCCGCATGACAAACTACATTAATTTATGCTAA
66 CTGACTAAAACATTAAAATTCTAAACATGGAAGGCCGCATGACAAACTACATTAATTTATGCTAA
116135738 TCTTTTTATAAAAATTATGAACT
131 TCTTTTTATAAAAATTATGAACT
116135761 TTTTA
1 TTTTA
116135766 TATTTTTTTG
Statistics
Matches: 153, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
153 153 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (153 bp):
TTTTAAAAAGAGTTGAATTTAACTATCAACCTTTTAGATTGAGTTGTGATTTTTTAACGGGAACA
CTGACTAAAACATTAAAATTCTAAACATGGAAGGCCGCATGACAAACTACATTAATTTATGCTAA
TCTTTTTATAAAAATTATGAACT
Found at i:116135790 original size:18 final size:19
Alignment explanation
Indices: 116135769--116135813 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
116135759 CTTTTTATAT
116135769 TTTTTTGAATTTTAAA-TA
1 TTTTTTGAATTTTAAATTA
* *
116135787 TTTTATAAATTTTAAATTA
1 TTTTTTGAATTTTAAATTA
*
116135806 TTTGTTGA
1 TTTTTTGA
116135814 TGTGACATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTTTGAATTTTAAATTA
Found at i:116138917 original size:47 final size:46
Alignment explanation
Indices: 116138807--116138918 Score: 147
Period size: 47 Copynumber: 2.4 Consensus size: 46
116138797 TCCGGGATAA
116138807 GCACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGT
1 GCACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACA-TATAGT
* * *
116138854 GCACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA-GTAGT
1 GCACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATATAGT
116138899 CGACACATAGTG-TCTCATCG
1 -G-CACATAGTGCT-TCATCG
116138919 CTCAATGTCG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
45 4 0.07
46 2 0.04
47 51 0.89
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (46 bp):
GCACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATATAGT
Found at i:116146371 original size:43 final size:43
Alignment explanation
Indices: 116146312--116146477 Score: 179
Period size: 43 Copynumber: 3.8 Consensus size: 43
116146302 AAAATGCCAC
* * *
116146312 AAAAGATCATGACTTTTAGCGGCGTTTGTGGGAAAGGCGCCGCT
1 AAAAG-TCATGGCTTTTAGCGGCATTTGTGGGAAAAGCGCCGCT
* * * **
116146356 AAAAGTCATGGCTTTTAGTGGCATTTGAGGGAAAAGTGTTGCT
1 AAAAGTCATGGCTTTTAGCGGCATTTGTGGGAAAAGCGCCGCT
** * * * *
116146399 AAAAGTCATGGCTTTTAATGACGTTTTTGAGAAAAGCGCCGCT
1 AAAAGTCATGGCTTTTAGCGGCATTTGTGGGAAAAGCGCCGCT
* *
116146442 AAAAGTCACGGCTTTTAGCAGCATTTGTGGGAAAAG
1 AAAAGTCATGGCTTTTAGCGGCATTTGTGGGAAAAG
116146478 ATAAATCTAA
Statistics
Matches: 97, Mismatches: 25, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
43 92 0.95
44 5 0.05
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.28
Consensus pattern (43 bp):
AAAAGTCATGGCTTTTAGCGGCATTTGTGGGAAAAGCGCCGCT
Found at i:116147199 original size:13 final size:14
Alignment explanation
Indices: 116147173--116147201 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
116147163 ACTAACGACG
116147173 AATTAAACCATTAT
1 AATTAAACCATTAT
116147187 AATTAAA-CATTAT
1 AATTAAACCATTAT
116147200 AA
1 AA
116147202 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:116159747 original size:24 final size:24
Alignment explanation
Indices: 116159715--116159764 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
116159705 TGAGGAAAGG
116159715 GATTAGGGATTAGGGGAAATGGGT
1 GATTAGGGATTAGGGGAAATGGGT
*
116159739 GATTGGGGATTAGGGGAAATGGGT
1 GATTAGGGATTAGGGGAAATGGGT
116159763 GA
1 GA
116159765 AATGGCTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.24
Consensus pattern (24 bp):
GATTAGGGATTAGGGGAAATGGGT
Found at i:116160110 original size:19 final size:19
Alignment explanation
Indices: 116160086--116160129 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
116160076 TTATATTTCA
116160086 TTTTTATTT-GTTATCAAT
1 TTTTTATTTAGTTATCAAT
*
116160104 GTTTTTATTTATTTATCAAT
1 -TTTTTATTTAGTTATCAAT
116160124 TTTTTA
1 TTTTTA
116160130 AATCTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTTATTTAGTTATCAAT
Found at i:116160421 original size:7 final size:7
Alignment explanation
Indices: 116160397--116160506 Score: 64
Period size: 7 Copynumber: 15.3 Consensus size: 7
116160387 ACTAATTAAT
116160397 CTAAACC
1 CTAAACC
116160404 CTAAAACC
1 CT-AAACC
*
116160412 CTAAATC
1 CTAAACC
**
116160419 CTAAAAA
1 CTAAACC
*
116160426 ATAAACCC
1 CTAAA-CC
116160434 CT-AACC
1 CTAAACC
116160440 CTTAAACC
1 C-TAAACC
116160448 CTAAACC
1 CTAAACC
*
116160455 TTAAATCC
1 CTAAA-CC
116160463 C--AACC
1 CTAAACC
116160468 CTTAAACC
1 C-TAAACC
* *
116160476 ATAATCC
1 CTAAACC
116160483 CTAAACC
1 CTAAACC
*
116160490 CATAATCC
1 C-TAAACC
*
116160498 ATAAACC
1 CTAAACC
116160505 CT
1 CT
116160507 TAAAATAATA
Statistics
Matches: 77, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
5 3 0.04
6 5 0.06
7 45 0.58
8 24 0.31
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:116160449 original size:14 final size:14
Alignment explanation
Indices: 116160427--116160506 Score: 74
Period size: 14 Copynumber: 5.6 Consensus size: 14
116160417 TCCTAAAAAA
116160427 TAAACCCCTAACCCT
1 TAAA-CCCTAACCCT
*
116160442 TAAACCCTAAACCT
1 TAAACCCTAACCCT
116160456 TAAATCCC-AACCCT
1 TAAA-CCCTAACCCT
*
116160470 TAAACCATAATCCC-
1 TAAACCCTAA-CCCT
* *
116160484 TAAACCCATAATCCA
1 TAAACCC-TAACCCT
116160499 TAAACCCT
1 TAAACCCT
116160507 TAAAATAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
13 2 0.04
14 33 0.60
15 20 0.36
ACGTcount: A:0.40, C:0.39, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAACCCT
Found at i:116160499 original size:22 final size:22
Alignment explanation
Indices: 116160436--116160506 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
116160426 ATAAACCCCT
*
116160436 AACCCTTAAACCC-TAAACCTTA
1 AACCC-TAAACCCATAAACCATA
*
116160458 AATCCC--AACCCTTAAACCATA
1 AA-CCCTAAACCCATAAACCATA
* *
116160479 ATCCCTAAACCCATAATCCATA
1 AACCCTAAACCCATAAACCATA
116160501 AACCCT
1 AACCCT
116160507 TAAAATAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
20 8 0.20
21 9 0.22
22 20 0.50
23 3 0.08
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (22 bp):
AACCCTAAACCCATAAACCATA
Found at i:116160691 original size:22 final size:22
Alignment explanation
Indices: 116160666--116160743 Score: 61
Period size: 22 Copynumber: 3.6 Consensus size: 22
116160656 TACTAATTAA
*
116160666 CCTAAACCCTAAACCTTTAATC
1 CCTAAACCCTAAACCTATAATC
* * *
116160688 CCTAATCCCTAATCC-CTAATC
1 CCTAAACCCTAAACCTATAATC
* *
116160709 CCATAATCCCT-AATCTATAATC
1 CC-TAAACCCTAAACCTATAATC
**
116160731 TTTAAACCCTAAA
1 CCTAAACCCTAAA
116160744 TCTTAAAACA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
21 16 0.36
22 28 0.64
ACGTcount: A:0.36, C:0.35, G:0.00, T:0.29
Consensus pattern (22 bp):
CCTAAACCCTAAACCTATAATC
Found at i:116160693 original size:7 final size:7
Alignment explanation
Indices: 116160683--116160723 Score: 73
Period size: 7 Copynumber: 5.7 Consensus size: 7
116160673 CCTAAACCTT
116160683 TAATCCC
1 TAATCCC
116160690 TAATCCC
1 TAATCCC
116160697 TAATCCC
1 TAATCCC
116160704 TAATCCC
1 TAATCCC
116160711 ATAATCCC
1 -TAATCCC
116160719 TAATC
1 TAATC
116160724 TATAATCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.32, C:0.39, G:0.00, T:0.29
Consensus pattern (7 bp):
TAATCCC
Found at i:116160699 original size:29 final size:29
Alignment explanation
Indices: 116160666--116160723 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
116160656 TACTAATTAA
**
116160666 CCTAAACCCTAAACCTTTAATCCCTAATC
1 CCTAAACCCTAAACCCATAATCCCTAATC
* *
116160695 CCTAATCCCTAATCCCATAATCCCTAATC
1 CCTAAACCCTAAACCCATAATCCCTAATC
116160724 TATAATCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.28
Consensus pattern (29 bp):
CCTAAACCCTAAACCCATAATCCCTAATC
Found at i:116160728 original size:14 final size:14
Alignment explanation
Indices: 116160683--116160730 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
116160673 CCTAAACCTT
*
116160683 TAATCCCTAATCCC
1 TAATCCCTAATCCA
116160697 TAATCCCTAATCCCA
1 TAATCCCTAAT-CCA
*
116160712 TAATCCCTAATCTA
1 TAATCCCTAATCCA
116160726 TAATC
1 TAATC
116160731 TTTAAACCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.31
Consensus pattern (14 bp):
TAATCCCTAATCCA
Found at i:116160823 original size:14 final size:14
Alignment explanation
Indices: 116160803--116160841 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
116160793 GAATCCTAAA
116160803 CCTTAAACCCCAA-
1 CCTTAAACCCCAAT
*
116160816 CACTTAAACCACAAT
1 C-CTTAAACCCCAAT
116160831 CCTTAAACCCC
1 CCTTAAACCCC
116160842 GTAAACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (14 bp):
CCTTAAACCCCAAT
Found at i:116160913 original size:14 final size:14
Alignment explanation
Indices: 116160880--116160923 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
116160870 CATAAACCTC
*
116160880 AAACCCTTAACCAT
1 AAACCCTAAACCAT
* *
116160894 ATACCCTAAACCGT
1 AAACCCTAAACCAT
*
116160908 AAACCCTAAACTAT
1 AAACCCTAAACCAT
116160922 AA
1 AA
116160924 TGATAATTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.20
Consensus pattern (14 bp):
AAACCCTAAACCAT
Found at i:116161210 original size:20 final size:20
Alignment explanation
Indices: 116161171--116161210 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
116161161 TGTATTTTAA
*
116161171 TATAATTAAACTAGTTAAAT
1 TATAATTAAACTAGTGAAAT
116161191 TATAATTAAAC-AGATGAAAT
1 TATAATTAAACTAG-TGAAAT
116161211 ATTTTTGGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (20 bp):
TATAATTAAACTAGTGAAAT
Found at i:116161711 original size:37 final size:37
Alignment explanation
Indices: 116161649--116161728 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
116161639 TAGCAGTGTT
* *
116161649 TTTTATAAAACGCCGCTAATTCTCGATCGTTAGCGGCG
1 TTTT-TAAAACGCCGATAATGCTCGATCGTTAGCGGCG
* * *
116161687 TTTTTAAAATGCCGATAATGCTCGATCTTTAGTGGCG
1 TTTTTAAAACGCCGATAATGCTCGATCGTTAGCGGCG
116161724 TTTTT
1 TTTTT
116161729 CATTAAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 33 0.89
38 4 0.11
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.39
Consensus pattern (37 bp):
TTTTTAAAACGCCGATAATGCTCGATCGTTAGCGGCG
Found at i:116165569 original size:46 final size:46
Alignment explanation
Indices: 116165508--116165688 Score: 197
Period size: 46 Copynumber: 3.9 Consensus size: 46
116165498 TAGGATGGTT
116165508 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGC
* * * *
116165554 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGA-GATGTA-AC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-A-ATTATGGATGC
* * *
116165600 TAGGCATCC-AAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGC
* ** * *
116165647 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGG
116165689 GTGGGTTACA
Statistics
Matches: 111, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
46 75 0.68
47 35 0.32
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGC
Found at i:116165669 original size:93 final size:93
Alignment explanation
Indices: 116165510--116165680 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
116165500 GGATGGTTGA
* * *
116165510 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCGAACTCGTTGAGT
116165575 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
116165603 GCATCC-AAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GCATCCGAA-CTCGTTAAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCGAACTCGTTGAG
116165667 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
116165681 ACTTATGGGT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:116177694 original size:15 final size:15
Alignment explanation
Indices: 116177636--116177696 Score: 61
Period size: 16 Copynumber: 4.0 Consensus size: 15
116177626 TTTTCTGAAA
*
116177636 AAACATAATT-TTTT
1 AAACATAATTATTCT
*
116177650 AAATATAAATTATTCT
1 AAACAT-AATTATTCT
* *
116177666 AAATAATGATTATTCT
1 AAA-CATAATTATTCT
116177682 AAACATAATTATTCT
1 AAACATAATTATTCT
116177697 CAAAACGTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
14 5 0.13
15 14 0.37
16 17 0.45
17 2 0.05
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (15 bp):
AAACATAATTATTCT
Found at i:116177804 original size:16 final size:16
Alignment explanation
Indices: 116177776--116177820 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
116177766 TGGACATAAC
116177776 TATTTTCAAACAACAAT
1 TATTTT-AAACAACAAT
*
116177793 TGTTTTAAACAACAAT
1 TATTTTAAACAACAAT
*
116177809 TATTCTAAACAA
1 TATTTTAAACAA
116177821 GAGTTGTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.36
Consensus pattern (16 bp):
TATTTTAAACAACAAT
Found at i:116183004 original size:26 final size:26
Alignment explanation
Indices: 116182975--116183027 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
116182965 TTTACAGTTT
116182975 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
116183001 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
116183027 T
1 T
116183028 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:116187748 original size:6 final size:6
Alignment explanation
Indices: 116187737--116187788 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
116187727 GGAAAGAGAG
* * *
116187737 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAG ATAAGAT -AAGAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAAAT
116187785 AAAA
1 AAAA
116187789 TTGATTAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
5 5 0.12
6 32 0.80
7 3 0.08
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:116192820 original size:47 final size:47
Alignment explanation
Indices: 116192711--116192821 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
116192701 CCGGGATAAG
*
116192711 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
116192758 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
116192805 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
116192822 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:116196729 original size:18 final size:19
Alignment explanation
Indices: 116196698--116196737 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
116196688 GGGAAGAGAG
116196698 AAAAATAAAAATAAAAATA
1 AAAAATAAAAATAAAAATA
* *
116196717 AAAAAT-AAGATAAAAGTA
1 AAAAATAAAAATAAAAATA
116196735 AAA
1 AAA
116196738 TTGATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAAATAAAAATAAAAATA
Found at i:116199211 original size:2 final size:2
Alignment explanation
Indices: 116199204--116199246 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
116199194 ATACTTTTAA
116199204 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116199246 A
1 A
116199247 AAATTAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:116199638 original size:2 final size:2
Alignment explanation
Indices: 116199631--116199656 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
116199621 TATCATCTTT
116199631 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
116199657 ATTAAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:116201164 original size:23 final size:23
Alignment explanation
Indices: 116201123--116201166 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
116201113 TGTAGACTTT
*
116201123 AAATACTCCACTAAGAGTGTATC
1 AAATACTCCACTAACAGTGTATC
116201146 AAATACTCCA-TCAACAGTGTA
1 AAATACTCCACT-AACAGTGTA
116201167 AATTAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (23 bp):
AAATACTCCACTAACAGTGTATC
Found at i:116203689 original size:16 final size:15
Alignment explanation
Indices: 116203668--116203697 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
116203658 TAATTTGAGA
116203668 TTTAATATTTATATAT
1 TTTAATATTT-TATAT
116203684 TTTAATATTTTATA
1 TTTAATATTTTATA
116203698 AAATTTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTAATATTTTATAT
Found at i:116205115 original size:12 final size:13
Alignment explanation
Indices: 116205092--116205116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
116205082 GTAAAAGTTT
116205092 AAAATTTAAAAAA
1 AAAATTTAAAAAA
116205105 AAAATTTAAAAA
1 AAAATTTAAAAA
116205117 TATTGTTTAT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATTTAAAAAA
Found at i:116205351 original size:15 final size:16
Alignment explanation
Indices: 116205327--116205356 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
116205317 CATGCGTCTC
116205327 TTTTTGTTAATATTTA
1 TTTTTGTTAATATTTA
116205343 TTTTT-TTAATATTT
1 TTTTTGTTAATATTT
116205357 TGCTATACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTTGTTAATATTTA
Found at i:116206664 original size:13 final size:13
Alignment explanation
Indices: 116206648--116206672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
116206638 AATTTAACCC
116206648 TTCATTTTACATT
1 TTCATTTTACATT
116206661 TTCATTTTACAT
1 TTCATTTTACAT
116206673 AGTCTGATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (13 bp):
TTCATTTTACATT
Found at i:116206977 original size:21 final size:21
Alignment explanation
Indices: 116206952--116206995 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
116206942 CTTTAGGTGT
116206952 AATTTGCTTGCACAATGCATG
1 AATTTGCTTGCACAATGCATG
*
116206973 AATTTGCTTGCACAGTGCATG
1 AATTTGCTTGCACAATGCATG
116206994 AA
1 AA
116206996 ATGAGACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (21 bp):
AATTTGCTTGCACAATGCATG
Found at i:116208031 original size:30 final size:30
Alignment explanation
Indices: 116207995--116208052 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
116207985 ATCATAAAGA
*
116207995 AACCTAGTACATCTAACATTAGGTTTATCC
1 AACCTAGTACATCTAACATAAGGTTTATCC
116208025 AACCTAGTACATCTAACATAAGGTTTAT
1 AACCTAGTACATCTAACATAAGGTTTAT
116208053 TCACTATCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (30 bp):
AACCTAGTACATCTAACATAAGGTTTATCC
Found at i:116211463 original size:47 final size:47
Alignment explanation
Indices: 116211405--116211577 Score: 151
Period size: 47 Copynumber: 3.6 Consensus size: 47
116211395 GAGAGCCAGA
* *
116211405 GTAAGACCATGTCCGGGACATGGCATCGGCGTAGATACAAGTGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCTAGATACAAGTGC-AGT
* * * *
116211453 GTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGATGATGATAG-CCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCTAGAT-A-CA-AGTGCAGT
* * *
116211500 GTATGA-TATGTCTGGGACATGGCATCGGCCTCGACGATGATAA-T-CAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCT--A-GAT-ACAAGTGCAGT
116211548 GTAAGACCATGTCTGGGACATGGCATCGGC
1 GTAAGACCATGTCTGGGACATGGCATCGGC
116211578 AACTCACCCC
Statistics
Matches: 103, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
46 12 0.12
47 33 0.32
48 27 0.26
49 25 0.24
50 1 0.01
51 5 0.05
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (47 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCCTAGATACAAGTGCAGT
Found at i:116211517 original size:94 final size:94
Alignment explanation
Indices: 116211351--116211528 Score: 234
Period size: 94 Copynumber: 1.9 Consensus size: 94
116211341 TCACTTGTGT
* *
116211351 GTGCTAGTGTAAGATATGTCTTGGACATGCATCAACCACATTATGAGAGCCAGAGTAAGACCATG
1 GTGCTAGTGTAAGACATGTCTTGGACATGCATCAACCACATGATGAGAGCCAGAGTAAGACCATG
116211416 TCCGGGACATGGCATCGGCGTAGATACAA
66 TCCGGGACATGGCATCGGCGTAGATACAA
** * * * * *
116211445 GTGCTAGTGTAAGACATGT-TTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTATGA-TA
1 GTGCTAGTGTAAGACATGTCTT-GGACATGCATCAACCAC-ATGATGAGAGCCAGAGTAAGACCA
*
116211508 TGTCTGGGACATGGCATCGGC
64 TGTCCGGGACATGGCATCGGC
116211529 CTCGACGATG
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
93 2 0.03
94 53 0.74
95 17 0.24
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (94 bp):
GTGCTAGTGTAAGACATGTCTTGGACATGCATCAACCACATGATGAGAGCCAGAGTAAGACCATG
TCCGGGACATGGCATCGGCGTAGATACAA
Done.