Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 358 of 427
Found at i:103987167 original size:32 final size:32
Alignment explanation
Indices: 103987126--103987189 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
103987116 TTATGCGCAG
103987126 TGAGCAATCTGAGGCTTGGTGTTGCATCTGTC
1 TGAGCAATCTGAGGCTTGGTGTTGCATCTGTC
103987158 TGAGCAATCTGAGGCTTGGTGTTGCATCTGTC
1 TGAGCAATCTGAGGCTTGGTGTTGCATCTGTC
103987190 CATGTAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (32 bp):
TGAGCAATCTGAGGCTTGGTGTTGCATCTGTC
Found at i:103991872 original size:35 final size:35
Alignment explanation
Indices: 103991826--103991896 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
103991816 TAAAGATCGG
*
103991826 TATCTCCACCATTTGTCTCGGTATCTATCTTTACC
1 TATCTCCACCATTTGTCTCGGCATCTATCTTTACC
103991861 TATCTCCACCATTTGTCTCGGCATCTATCTTTACC
1 TATCTCCACCATTTGTCTCGGCATCTATCTTTACC
103991896 T
1 T
103991897 CTAGATTGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.17, C:0.32, G:0.08, T:0.42
Consensus pattern (35 bp):
TATCTCCACCATTTGTCTCGGCATCTATCTTTACC
Found at i:103996890 original size:11 final size:11
Alignment explanation
Indices: 103996874--103996920 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
103996864 AATAGTCCTT
103996874 TCACAATTCTC
1 TCACAATTCTC
103996885 TCACAATTCTC
1 TCACAATTCTC
103996896 TC-CAAATTCTC
1 TCAC-AATTCTC
103996907 TCA-AATTTCTC
1 TCACAA-TTCTC
103996918 TCA
1 TCA
103996921 ATTTTTGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.09
11 30 0.91
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (11 bp):
TCACAATTCTC
Found at i:103996938 original size:21 final size:21
Alignment explanation
Indices: 103996914--103996953 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
103996904 CTCTCAAATT
103996914 TCTC-TCAATTTTTGTCAAAGC
1 TCTCTTCAATTTTTG-CAAAGC
*
103996935 TCTCTTTAATTTTTGCAAA
1 TCTCTTCAATTTTTGCAAA
103996954 AAAGCTCTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (21 bp):
TCTCTTCAATTTTTGCAAAGC
Found at i:103998109 original size:7 final size:7
Alignment explanation
Indices: 103998097--103998179 Score: 132
Period size: 7 Copynumber: 12.0 Consensus size: 7
103998087 TAGTCGTTTC
103998097 GTATTTA
1 GTATTTA
103998104 GTATTTA
1 GTATTTA
103998111 GTATTTA
1 GTATTTA
103998118 GTATTTA
1 GTATTTA
103998125 GTATTTA
1 GTATTTA
103998132 GTA-TTA
1 GTATTTA
103998138 GTATTTA
1 GTATTTA
*
103998145 GTGTTTA
1 GTATTTA
103998152 GTATTTA
1 GTATTTA
*
103998159 GGATTTA
1 GTATTTA
103998166 GTATTTA
1 GTATTTA
*
103998173 GGATTTA
1 GTATTTA
103998180 ACTAATATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
6 6 0.09
7 64 0.91
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (7 bp):
GTATTTA
Found at i:103998141 original size:34 final size:35
Alignment explanation
Indices: 103998097--103998179 Score: 132
Period size: 34 Copynumber: 2.4 Consensus size: 35
103998087 TAGTCGTTTC
*
103998097 GTATTTAGTATTTAGTATTTAGTATTTAGTATTTA
1 GTATTTAGTATTTAGTATTTAGTATTTAGGATTTA
*
103998132 GTA-TTAGTATTTAGTGTTTAGTATTTAGGATTTA
1 GTATTTAGTATTTAGTATTTAGTATTTAGGATTTA
*
103998166 GTATTTAGGATTTA
1 GTATTTAGTATTTA
103998180 ACTAATATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
34 32 0.73
35 12 0.27
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (35 bp):
GTATTTAGTATTTAGTATTTAGTATTTAGGATTTA
Found at i:103998809 original size:18 final size:18
Alignment explanation
Indices: 103998786--103998823 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
103998776 TGCCAGTTGC
*
103998786 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
103998804 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
103998822 GT
1 GT
103998824 TTTCTTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:103999691 original size:19 final size:20
Alignment explanation
Indices: 103999667--103999704 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
103999657 AAAAGTTGTT
103999667 TTTAA-TATTTTAATTTTAC
1 TTTAATTATTTTAATTTTAC
*
103999686 TTTAATTTTTTTAATTTTA
1 TTTAATTATTTTAATTTTA
103999705 TTAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTAATTATTTTAATTTTAC
Found at i:103999703 original size:261 final size:261
Alignment explanation
Indices: 103999236--103999878 Score: 1038
Period size: 261 Copynumber: 2.4 Consensus size: 261
103999226 GTAGAAACTT
* * *
103999236 TTTTTATATAGTTTCATATAATAAAATAAAAGTTGTTTTTGATATTTTAATCGTACTTTACTTTT
1 TTTTTATATAGTTTAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC-TTT
* * *
103999301 TTTTAAATTTTATTAAGATAAATGTTTTTTTAGATTAGGCAATATTTTTTTATTATTTTTTATTT
64 TTTT-AATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATA-TTTTTTATTATTTTTTATTT
*
103999366 AATTTTTTATATAGTTTCAATTAATAAAATAAAATTTGTTTTTAATATTTTAATTGTACTTCAAT
127 AATTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTCAAT
103999431 TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATA-TTTTTTATTATTTTTATAT
192 TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTTATTATTTTTATAT
103999495 TTAAA
257 TTAAA
* *
103999500 TTTTTATATAGTTTGAATTAAAAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTA-ATTT
1 TTTTTATATAGTTT-AATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
*
103999564 TTTAATTTTTTTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATTTAA
65 TTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTT-TATTTAA
* *
103999629 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTTTACTTTAATTT
129 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTCAATTT
*
103999694 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGTCAATATTTTTTTATTATTTTTATATTT
194 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTTATTATTTTTATATTT
**
103999759 ATT
259 AAA
103999762 TTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
1 TTTTTATATAG-TTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
* * * *
103999827 TTTAATTTTAATACAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
65 TTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTA
103999879 AAATAAATGT
Statistics
Matches: 352, Mismatches: 22, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
260 15 0.04
261 146 0.41
262 83 0.24
263 53 0.15
264 53 0.15
265 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (261 bp):
TTTTTATATAGTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTT
TTAATTTTATTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTTATTTAATT
TTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTCAATTTTT
TTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTTATTATTTTTATATTTAA
A
Found at i:103999767 original size:14 final size:15
Alignment explanation
Indices: 103999741--103999770 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
103999731 TCAATATTTT
103999741 TTTATTATTTTTATA
1 TTTATTATTTTTATA
103999756 TTTATT-TTTTTATA
1 TTTATTATTTTTATA
103999770 T
1 T
103999771 AGTTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTATTTTTATA
Found at i:103999790 original size:132 final size:131
Alignment explanation
Indices: 103999235--103999878 Score: 1024
Period size: 131 Copynumber: 4.9 Consensus size: 131
103999225 TGTAGAAACT
* * *
103999235 TTTTTTATATAGTTTC-ATATAATAAAATAAAAGTTGTTTTTGATATTTTAATCGTACTTTACTT
1 TTTTTTATATAGTTTCAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTA-AT
* * * *
103999299 TTTTTTAAATTTTATTAAGATAAATGTTTTTTTAGATTAGGCAATATTTTTTTATTATTTTT-TA
64 TTTTTT-AATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATA-TTTTTTATTATTTTTATA
103999363 TTTAA
127 TTTAA
* *
103999368 TTTTTTATATAGTTTCAATTAATAAAATAAAATTTGTTTTTAATATTTTAATTGTACTTCAATTT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAATTT
103999433 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTATTTTTATATTTA
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTATTTTTATATTTA
103999498 A
131 A
* * *
103999499 ATTTTTATATAGTTTGAATTAAAAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAA-TT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAATTT
* *
103999563 TTTTAATTTTTTTAAAATAAATGTTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATTTA
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTATTTTTATATTTA
103999628 A
131 A
*
103999629 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTTTACTTTAATTT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAATTT
*
103999694 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGTCAATATTTTTTTATTATTTTTATATTT
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATA-TTTTTTATTATTTTTATATTT
*
103999759 AT
130 AA
* *
103999761 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAATTT
* * *
103999826 TTTTAATTTTAATACAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTA
103999879 AAATAAATGT
Statistics
Matches: 477, Mismatches: 30, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
130 139 0.29
131 151 0.32
132 131 0.27
133 54 0.11
134 2 0.00
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (131 bp):
TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAATTT
TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTATTTTTATATTTA
A
Found at i:103999921 original size:9 final size:9
Alignment explanation
Indices: 103999907--103999934 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
103999897 ATACGGTAAC
103999907 ATTTTTAAT
1 ATTTTTAAT
103999916 ATTTTTAAT
1 ATTTTTAAT
103999925 ATTTTTAAT
1 ATTTTTAAT
103999934 A
1 A
103999935 AAATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:104005065 original size:14 final size:14
Alignment explanation
Indices: 104005048--104005075 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
104005038 TGTTTTAATT
104005048 ATGTGGGATTAAAA
1 ATGTGGGATTAAAA
104005062 ATGTGGGATTAAAA
1 ATGTGGGATTAAAA
104005076 TTAACTTTTT
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:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (14 bp):
ATGTGGGATTAAAA
Found at i:104005277 original size:13 final size:13
Alignment explanation
Indices: 104005259--104005284 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104005249 GAGATTAAAA
104005259 TTAACTTTTTAAT
1 TTAACTTTTTAAT
104005272 TTAACTTTTTAAT
1 TTAACTTTTTAAT
104005285 GAAATAATGA
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:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
TTAACTTTTTAAT
Found at i:104005505 original size:67 final size:67
Alignment explanation
Indices: 104005366--104005560 Score: 198
Period size: 67 Copynumber: 2.9 Consensus size: 67
104005356 TGGAGCCTGG
* * *
104005366 GAGTATTCTCTAGCCAATGAGGGATT-AAAATTAA-TTTTTAATGAAAATAGTGAAGAAATGAGT
1 GAGTATTCTCTAGTCAATGTGGGATTAAAAATAAATTTTTTAATGAAAATAGTGAAG--ATGAGT
*
104005429 TATC
64 TATA
* * * *
104005433 CAGTATTCTCTAATCAGTGTGGAATTAAAAATAAATTTTTTAATGAAAATAGTGAAG-TGAGTTA
1 GAGTATTCTCTAGTCAATGTGGGATTAAAAATAAATTTTTTAATGAAAATAGTGAAGATGAGTTA
104005497 TAA
66 T-A
* * * * *
104005500 GAGTATTCTTTAGTCAATATGGGATTAAAATTAACTTTTTTTTTAAGGAAAATAGTGAAGA
1 GAGTATTCTCTAGTCAATGTGGGATTAAAAATAA---ATTTTTTAATGAAAATAGTGAAGA
104005561 AATTATCACT
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
66 8 0.08
67 47 0.45
68 7 0.07
69 21 0.20
70 21 0.20
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (67 bp):
GAGTATTCTCTAGTCAATGTGGGATTAAAAATAAATTTTTTAATGAAAATAGTGAAGATGAGTTA
TA
Found at i:104018475 original size:46 final size:46
Alignment explanation
Indices: 104018413--104018779 Score: 504
Period size: 46 Copynumber: 8.0 Consensus size: 46
104018403 AGTGTGCTCT
104018413 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
104018459 CTGATATAAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
104018505 CTGATATGAAATGTGTAAGACCATGGCTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
**
104018551 CTGATATGAAACATGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
104018597 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
104018643 GTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
104018689 GTGACGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * *
104018736 ATGATA-GAAAATAAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
104018780 TCATGTCGAA
Statistics
Matches: 291, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 251 0.86
47 39 0.13
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:104028189 original size:21 final size:22
Alignment explanation
Indices: 104028152--104028193 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
104028142 GACAATATGA
104028152 GATTAAAATTAAATTTTTAATG
1 GATTAAAATTAAATTTTTAATG
104028174 GATTAAAATT-AATTTTTAAT
1 GATTAAAATTAAATTTTTAAT
104028194 AAAAATAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
GATTAAAATTAAATTTTTAATG
Found at i:104030372 original size:47 final size:46
Alignment explanation
Indices: 104030318--104030494 Score: 218
Period size: 47 Copynumber: 3.8 Consensus size: 46
104030308 TGGTTGAGCA
104030318 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GAATG
* *
104030365 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* *
104030410 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
104030458 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104030495 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 37 0.33
47 58 0.51
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:104035765 original size:30 final size:30
Alignment explanation
Indices: 104035725--104035785 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
104035715 TAGTTAAGGC
*
104035725 TCAGGGACTAAATTGTAAAGGTTCAATCGT
1 TCAGGAACTAAATTGTAAAGGTTCAATCGT
104035755 TCAGGAACTAAATTGTAAAGGTTCAATCGT
1 TCAGGAACTAAATTGTAAAGGTTCAATCGT
104035785 T
1 T
104035786 ATAGTTTTTT
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:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (30 bp):
TCAGGAACTAAATTGTAAAGGTTCAATCGT
Found at i:104040018 original size:34 final size:34
Alignment explanation
Indices: 104039975--104040042 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
104039965 AACTATTATC
104039975 TTCAAATCTAATAGCACAACTTATATTCAAAGTT
1 TTCAAATCTAATAGCACAACTTATATTCAAAGTT
*
104040009 TTCAAATCTAATAGCACAACTTATATTTAAAGTT
1 TTCAAATCTAATAGCACAACTTATATTCAAAGTT
104040043 CTTTCTCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (34 bp):
TTCAAATCTAATAGCACAACTTATATTCAAAGTT
Found at i:104041285 original size:13 final size:13
Alignment explanation
Indices: 104041267--104041309 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
104041257 TTTTTATGTT
104041267 TTATTATAATATA
1 TTATTATAATATA
104041280 TTATTATATTAATATA
1 TTA-T-TA-TAATATA
*
104041296 TTATTATATTATA
1 TTATTATAATATA
104041309 T
1 T
104041310 ACTTAAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 10 0.38
14 3 0.12
15 3 0.12
16 10 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTATTATAATATA
Found at i:104041287 original size:8 final size:8
Alignment explanation
Indices: 104041276--104041307 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
104041266 TTTATTATAA
104041276 TATATTAT
1 TATATTAT
*
104041284 TATATTAA
1 TATATTAT
104041292 TATATTAT
1 TATATTAT
104041300 TATATTAT
1 TATATTAT
104041308 ATACTTAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATATTAT
Found at i:104041292 original size:16 final size:16
Alignment explanation
Indices: 104041273--104041310 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
104041263 TGTTTTATTA
104041273 TAATATATTATTATAT
1 TAATATATTATTATAT
104041289 TAATATATTATTATAT
1 TAATATATTATTATAT
104041305 T-ATATA
1 TAATATA
104041311 CTTAAGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATATTATTATAT
Found at i:104042329 original size:32 final size:32
Alignment explanation
Indices: 104042293--104042357 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
104042283 TGTATGCATT
104042293 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
104042325 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
104042357 T
1 T
104042358 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:104043916 original size:26 final size:26
Alignment explanation
Indices: 104043887--104043939 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
104043877 TTTACAGTTT
104043887 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
104043913 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
104043939 T
1 T
104043940 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:104047223 original size:47 final size:47
Alignment explanation
Indices: 104047090--104047306 Score: 220
Period size: 47 Copynumber: 4.6 Consensus size: 47
104047080 ATAGTATAAC
* * * * *
104047090 TATGGTCTTGCACATAATCATATATCACACACCGAAGCCATAGCCCAGC
1 TATGGTCTTACACAGAATCACATAT--CACACCGATGCCATAGCCCAGA
* * * *
104047139 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTACACAGAATCACATATCACACCGATGCCATAGCCCAGA
* * * *
104047185 TATGGTCTTACACAGAAGCACATATCACACCGATGCCATATCCTAAA
1 TATGGTCTTACACAGAATCACATATCACACCGATGCCATAGCCCAGA
* * * * *
104047232 TATGGTCTTATACGGAAGCACATATCATACCGATGCCATAGCCCAGC
1 TATGGTCTTACACAGAATCACATATCACACCGATGCCATAGCCCAGA
* *
104047279 TATGGTCTTATACGGGAATCACATATCA
1 TATGGTCTTACAC-AGAATCACATATCA
104047307 AATGTTGTCA
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
46 30 0.21
47 81 0.57
48 21 0.15
49 11 0.08
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (47 bp):
TATGGTCTTACACAGAATCACATATCACACCGATGCCATAGCCCAGA
Found at i:104052332 original size:16 final size:16
Alignment explanation
Indices: 104052307--104052337 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104052297 CACATGCCCG
*
104052307 TGTGGTCAGCCCGTGT
1 TGTGGCCAGCCCGTGT
104052323 TGTGGCCAGCCCGTG
1 TGTGGCCAGCCCGTG
104052338 GGCAATTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.29, G:0.39, T:0.26
Consensus pattern (16 bp):
TGTGGCCAGCCCGTGT
Found at i:104054931 original size:9 final size:9
Alignment explanation
Indices: 104054917--104054941 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
104054907 GCTTGCTGTC
104054917 GAGAAATAA
1 GAGAAATAA
104054926 GAGAAATAA
1 GAGAAATAA
104054935 GAGAAAT
1 GAGAAAT
104054942 TGATGCGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (9 bp):
GAGAAATAA
Found at i:104061721 original size:53 final size:53
Alignment explanation
Indices: 104061565--104061730 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
104061555 GACGAAAAAT
* **
104061565 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
104061617 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
104061670 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
104061724 TATGTGA
1 -ATGTGA
104061731 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:104064863 original size:51 final size:52
Alignment explanation
Indices: 104064807--104064915 Score: 118
Period size: 51 Copynumber: 2.1 Consensus size: 52
104064797 TCTGTTGTTG
* * *
104064807 TTATATAAATATAAATT-TTTTATCTGTTTTATTTTTAATCTTATTT-T-TATA
1 TTATATAAATATAAATTATTTTAT-T-ATTTATTATTAATATTATTTATATATA
* * *
104064858 TTATAT-ATTATATATTATTTTATTATTTATTATTCATATTATTTATATATA
1 TTATATAAATATAAATTATTTTATTATTTATTATTAATATTATTTATATATA
104064909 TTATATA
1 TTATATA
104064916 TTATTTTTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
49 16 0.33
50 10 0.21
51 22 0.46
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (52 bp):
TTATATAAATATAAATTATTTTATTATTTATTATTAATATTATTTATATATA
Found at i:104064866 original size:7 final size:7
Alignment explanation
Indices: 104064854--104064995 Score: 83
Period size: 7 Copynumber: 20.9 Consensus size: 7
104064844 ATCTTATTTT
104064854 TATATTA
1 TATATTA
104064861 TATATTA
1 TATATTA
104064868 TATATTA
1 TATATTA
*
104064875 TTTTATTA
1 -TATATTA
*
104064883 TTTATTA
1 TATATTA
104064890 TTCATATTA
1 -T-ATATTA
*
104064899 TTTA-TA
1 TATATTA
104064905 TATATTA
1 TATATTA
104064912 TATATTA
1 TATATTA
104064919 T-T-TT-
1 TATATTA
*
104064923 TACA-TA
1 TATATTA
104064929 TATACTT-
1 TATA-TTA
104064936 TCATATTA
1 T-ATATTA
104064944 TATATTA
1 TATATTA
104064951 TAT-TTA
1 TATATTA
104064957 T-T-TTA
1 TATATTA
104064962 TATTATTA
1 TA-TATTA
*
104064970 TGTCATT-
1 TAT-ATTA
104064977 T-T-TTA
1 TATATTA
104064982 TACTATTA
1 TA-TATTA
104064990 TATATT
1 TATATT
104064996 TTTTATCTAT
Statistics
Matches: 109, Mismatches: 7, Indels: 38
0.71 0.05 0.25
Matches are distributed among these distances:
4 3 0.03
5 9 0.08
6 14 0.13
7 53 0.49
8 25 0.23
9 5 0.05
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (7 bp):
TATATTA
Found at i:104064916 original size:20 final size:19
Alignment explanation
Indices: 104064853--104065013 Score: 120
Period size: 20 Copynumber: 8.2 Consensus size: 19
104064843 AATCTTATTT
*
104064853 TTATATTATATATTATATA
1 TTATTTTATATATTATATA
104064872 TTATTTTATTATTTATTATTCATA
1 TTATTTTA-TA--TATTA-T-ATA
104064896 TTATTTATATATATTATATA
1 TTATTT-TATATATTATATA
*
104064916 TTATTTT-TACA-TATATA
1 TTATTTTATATATTATATA
*
104064933 CTTTCATATTATATATTATAT-
1 --TT-ATTTTATATATTATATA
*
104064954 TTATTTTATATTATTATGTCA
1 TTATTTTATA-TATTATAT-A
104064975 TT-TTTTATACTATTATATA
1 TTATTTTATA-TATTATATA
*
104064994 TT-TTTTATCTA-TAT-TA
1 TTATTTTATATATTATATA
104065010 TTAT
1 TTAT
104065014 GATCAAAAGT
Statistics
Matches: 118, Mismatches: 9, Indels: 32
0.74 0.06 0.20
Matches are distributed among these distances:
16 4 0.03
17 10 0.08
18 12 0.10
19 28 0.24
20 29 0.25
21 6 0.05
22 15 0.13
23 1 0.01
24 11 0.09
25 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (19 bp):
TTATTTTATATATTATATA
Found at i:104065338 original size:12 final size:13
Alignment explanation
Indices: 104065294--104065342 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
104065284 TATAAATTTT
*
104065294 TTATTATATATTA
1 TTATTAAATATTA
*
104065307 TATATTAAATACTA
1 T-TATTAAATATTA
104065321 TT-TTAAA-ATTA
1 TTATTAAATATTA
104065332 TTATTAAATAT
1 TTATTAAATAT
104065343 CATATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 5 0.17
12 10 0.33
13 4 0.13
14 11 0.37
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (13 bp):
TTATTAAATATTA
Found at i:104073311 original size:13 final size:13
Alignment explanation
Indices: 104073293--104073319 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
104073283 GAAGGAAAGG
104073293 TATGAATGTGTGT
1 TATGAATGTGTGT
104073306 TATGAATGTGTGT
1 TATGAATGTGTGT
104073319 T
1 T
104073320 GATTACAGAG
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:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TATGAATGTGTGT
Found at i:104075335 original size:22 final size:22
Alignment explanation
Indices: 104075305--104075354 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
104075295 GGACAAAATT
104075305 CATG-TACCATCTTCACCTTTA
1 CATGTTACCATCTTCACCTTTA
104075326 CATGTTACCATCTTCACCTTTA
1 CATGTTACCATCTTCACCTTTA
104075348 CATGTTA
1 CATGTTA
104075355 TGACTTCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.24, C:0.30, G:0.06, T:0.40
Consensus pattern (22 bp):
CATGTTACCATCTTCACCTTTA
Found at i:104077565 original size:205 final size:205
Alignment explanation
Indices: 104077183--104078352 Score: 1903
Period size: 205 Copynumber: 5.7 Consensus size: 205
104077173 GCAGATCTGG
* * * * * *
104077183 CTGAAGCAAAATCCAAGATGGTTTGGCATTCTTGTGCTTACAAGGAACAAACCAAAGACATAGCT
1 CTGAAGC-AAATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* * *
104077248 GATTTGGCTTTCACATGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAA
65 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * *
104077313 AGAGCAAATCAAAGTCTGGTATCTCCAGTTCAACGGGGAGCAGATACATAGGAGATCTCACCTTT
130 AGAGCAAATCAAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATACATAGCAGATCTCACCTTC
104077378 AGATGTTTATA
195 AGATGTTTATA
*
104077389 CTGAAGCAAAACCAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAAATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * *
104077454 ATTTGGCTTTCACGGGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * *
104077519 GAGCAAATCGAAGTCTGGCATCTCCATTTCAATGGGGAGTAGATACATAGCAGATCTCACCTTCA
131 GAGCAAATCAAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATACATAGCAGATCTCACCTTCA
104077584 GATGTTTATA
196 GATGTTTATA
* * * *
104077594 CTGAAGTAGATCCAAGATGATTTAGCATCATTATGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAAATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
104077659 ATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
104077724 GAGAAAATCAAAGTCTGGCATCTCCACTTCAATGGGGAGCAGATACATAGCAGATCTCACCTTCA
131 GAGCAAATCAAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATACATAGCAGATCTCACCTTCA
*
104077789 AATGTTTATA
196 GATGTTTATA
* *
104077799 CTGAAGCAGATCCAAGATGATTTAACATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAAATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
104077864 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
104077929 GAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATACATAGCAGATCTCACCTTCA
131 GAGCAAATCAAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATACATAGCAGATCTCACCTTCA
104077994 GATGTTTATA
196 GATGTTTATA
104078004 CTGAAGCAAATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAAATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
104078069 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
104078134 GAACAAATCAAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATACATAGCAGATCTCACATTCA
131 GAGCAAATCAAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATACATAGCAGATCTCACCTTCA
* * *
104078199 AATAATTT-CA
196 GAT-GTTTATA
* *
104078209 CTGAAGCAAGATCCAAGATGATTT-GACATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGC
1 CTGAAGCAA-ATCCAAGATGATTTAG-CATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGC
* *
104078273 TGATTTGGCTTTCATGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
64 TGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* *
104078338 GAGAACAAACCAAAG
129 GAGAGCAAATCAAAG
104078353 AAGCAGATTT
Statistics
Matches: 909, Mismatches: 52, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
205 772 0.85
206 137 0.15
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (205 bp):
CTGAAGCAAATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAGCAAATCAAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATACATAGCAGATCTCACCTTCA
GATGTTTATA
Found at i:104079733 original size:24 final size:24
Alignment explanation
Indices: 104079706--104079752 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
104079696 TAATTTTTAT
*
104079706 TATTAT-ATATTATATATTAAATAC
1 TATTATAAAATTAT-TATTAAATAC
*
104079730 TATTTTAAAATTATTATTAAATA
1 TATTATAAAATTATTATTAAATA
104079753 TCATATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
TATTATAAAATTATTATTAAATAC
Found at i:104079836 original size:17 final size:18
Alignment explanation
Indices: 104079800--104079839 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
104079790 CACTTTATTT
* *
104079800 TATATTTTTATTCTTTTA
1 TATATTTTTATTCGTATA
104079818 TATATTTTTATT-GTATA
1 TATATTTTTATTCGTATA
104079835 TATAT
1 TATAT
104079840 CATTTATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
TATATTTTTATTCGTATA
Found at i:104081777 original size:13 final size:14
Alignment explanation
Indices: 104081759--104081787 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
104081749 ATATGATTAT
104081759 TAAAATATTAA-AA
1 TAAAATATTAATAA
104081772 TAAAATATTAATAA
1 TAAAATATTAATAA
104081786 TA
1 TA
104081788 TTAAAATTAG
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAAATATTAATAA
Found at i:104098185 original size:18 final size:17
Alignment explanation
Indices: 104098162--104098195 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
104098152 AAGAGGATGT
104098162 TTATAAAGGAAGAAAAAC
1 TTATAAAGGAA-AAAAAC
*
104098180 TTATAAATGAAAAAAA
1 TTATAAAGGAAAAAAA
104098196 GGAAGGCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.21
Consensus pattern (17 bp):
TTATAAAGGAAAAAAAC
Found at i:104103143 original size:22 final size:24
Alignment explanation
Indices: 104103094--104103143 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
104103084 ATTGTTTAGT
* * *
104103094 TTTTTTATTGTGATTTTTATGTTG
1 TTTTTTATTGTGATTTTAAAGTTA
104103118 TTTTTTATT-T-ATTTTAAAGTTA
1 TTTTTTATTGTGATTTTAAAGTTA
104103140 TTTT
1 TTTT
104103144 GTTCGTAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 13 0.57
23 1 0.04
24 9 0.39
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (24 bp):
TTTTTTATTGTGATTTTAAAGTTA
Found at i:104103590 original size:22 final size:21
Alignment explanation
Indices: 104103565--104103607 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
104103555 TTTATTGTAA
*
104103565 TTATATTATTATTGTACTATAT
1 TTATAGTATTATT-TACTATAT
* *
104103587 TTATCGTATTATTTATTATAT
1 TTATAGTATTATTTACTATAT
104103608 AATATTAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
TTATAGTATTATTTACTATAT
Found at i:104105415 original size:27 final size:27
Alignment explanation
Indices: 104105363--104105416 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
104105353 GTCATACCAC
*
104105363 AAATCAGTCATTTACCCTCGATGGGTA
1 AAATCAGTCATTTACCCTCGAGGGGTA
104105390 AAAT-AGTCATTTTACCCT-GTAGGGGTA
1 AAATCAGTCA-TTTACCCTCG-AGGGGTA
104105417 TTTTGGTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCGAGGGGTA
Found at i:104106811 original size:24 final size:24
Alignment explanation
Indices: 104106766--104106811 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
104106756 ATCACTCCAT
** **
104106766 AATCCTCTTCTTGATTTTCTCCCC
1 AATCCTCCCCTTGATTCCCTCCCC
104106790 AATCCTCCCCTTGATTCCCTCC
1 AATCCTCCCCTTGATTCCCTCC
104106812 ACATAACACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.13, C:0.43, G:0.04, T:0.39
Consensus pattern (24 bp):
AATCCTCCCCTTGATTCCCTCCCC
Found at i:104116682 original size:48 final size:48
Alignment explanation
Indices: 104116618--104116745 Score: 193
Period size: 48 Copynumber: 2.7 Consensus size: 48
104116608 CAAGGTAAAT
* * *
104116618 ATATATATGTGTGGTAAAGCCGAATGGCTAATATGAGACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
* *
104116666 ATATGTATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
* *
104116714 AGATGTATATTTGGTAAAGCCGAATGGCTAAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAAT
104116746 GTGCAATACG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAACATGTATGAG
Found at i:104116769 original size:48 final size:47
Alignment explanation
Indices: 104116629--104116772 Score: 182
Period size: 48 Copynumber: 3.0 Consensus size: 47
104116619 TATATATGTG
* * *
104116629 TGGTAAAGCCGAATGGCTAATATGAGACATGTATGAGATATGTATATG
1 TGGTAAAGCCGAATGGCTAATATGA-ATATGTATGAGATGTGTATATT
*
104116677 TGGTAAAGCCAAATGGCTAATATGAAATATGTATGAGA-GATGTATATT
1 TGGTAAAGCCGAATGGCTAATATG-AATATGTATGAGATG-TGTATATT
* * *
104116725 TGGTAAAGCCGAATGGCTAATGTGCAATACGTAGGAGATGTGTATATT
1 TGGTAAAGCCGAATGGCTAATATG-AATATGTATGAGATGTGTATATT
104116773 GTGGCCGAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
48 82 0.98
49 2 0.02
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.30
Consensus pattern (47 bp):
TGGTAAAGCCGAATGGCTAATATGAATATGTATGAGATGTGTATATT
Found at i:104116951 original size:37 final size:37
Alignment explanation
Indices: 104116901--104116971 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
104116891 GGAAATATAT
*
104116901 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTCTG
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTG
104116938 TCCGGGTAAGACCCGATGACCACGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATT
104116972 TTATCCGAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTG
Found at i:104119878 original size:42 final size:41
Alignment explanation
Indices: 104119831--104119925 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 41
104119821 ATGGCACCTT
* *
104119831 GTGCCTCATCGGATTTAATCTGAAGCAATAATACG-ACAGATA
1 GTGCCTCATCGGAATT-ATC-AAAGCAATAATACGAACAGATA
* * * *
104119873 GTGCCTCATAGGAATTATCAAAGTAATATTACGACACATATA
1 GTGCCTCATCGGAATTATCAAAGCAATAATACGA-ACAGATA
104119915 GTGCCTCATCG
1 GTGCCTCATCG
104119926 ACTTGAGGTC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
40 11 0.25
41 3 0.07
42 30 0.68
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (41 bp):
GTGCCTCATCGGAATTATCAAAGCAATAATACGAACAGATA
Found at i:104126153 original size:27 final size:27
Alignment explanation
Indices: 104126110--104126186 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
104126100 CGTCCTGGTC
104126110 GCTATGCCACAATTATCTGATCTCGTG
1 GCTATGCCACAATTATCTGATCTCGTG
* *
104126137 GCTCTGCCAC-ATATATCT-ATCCTGGTG
1 GCTATGCCACAAT-TATCTGAT-CTCGTG
*
104126164 GCTATGCCATAATTATCTGATCT
1 GCTATGCCACAATTATCTGATCT
104126187 GTCTGTTCTG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.10
27 34 0.81
28 4 0.10
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (27 bp):
GCTATGCCACAATTATCTGATCTCGTG
Found at i:104127604 original size:55 final size:55
Alignment explanation
Indices: 104127538--104127650 Score: 190
Period size: 55 Copynumber: 2.1 Consensus size: 55
104127528 CTAGTGCCTT
* *
104127538 AGTCAACATTTGCTTCAATTTCTCAAAACTTTCTAGCCATTGATTATCCCAAACA
1 AGTCAACATTTGCTTCAATTTCTCAAAACTTTCTAGCCATTAATCATCCCAAACA
* *
104127593 AGTCAACATTTGCTTCAATTTCTCAAAACTTTCTTGGCATTAATCATCCCAAACA
1 AGTCAACATTTGCTTCAATTTCTCAAAACTTTCTAGCCATTAATCATCCCAAACA
104127648 AGT
1 AGT
104127651 GGAACATTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.35
Consensus pattern (55 bp):
AGTCAACATTTGCTTCAATTTCTCAAAACTTTCTAGCCATTAATCATCCCAAACA
Found at i:104131530 original size:42 final size:41
Alignment explanation
Indices: 104131484--104131566 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
104131474 ACGGCACCGT
*
104131484 GTGCCTCATCGGATTTAATCCAAAGCAATAATACGACACATA
1 GTGCCTCATCGGAATT-ATCCAAAGCAATAATACGACACATA
* * * * *
104131526 GTGCCTTATTGGAATTATCCAAAGTAATATTATGACACATA
1 GTGCCTCATCGGAATTATCCAAAGCAATAATACGACACATA
104131567 TAGTGTCTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
41 22 0.63
42 13 0.37
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.29
Consensus pattern (41 bp):
GTGCCTCATCGGAATTATCCAAAGCAATAATACGACACATA
Found at i:104137728 original size:14 final size:14
Alignment explanation
Indices: 104137695--104137745 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
104137685 CAGATTTATC
* *
104137695 TTCTTCTTCTTTTTT
1 TTCTTC-TCATTTCT
104137710 TTCTTCTCATTTCT
1 TTCTTCTCATTTCT
*
104137724 TTCTTCTTATTGTC-
1 TTCTTCTCATT-TCT
104137738 TTCTTCTC
1 TTCTTCTC
104137746 TACTGCTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 23 0.74
15 8 0.26
ACGTcount: A:0.04, C:0.25, G:0.02, T:0.69
Consensus pattern (14 bp):
TTCTTCTCATTTCT
Found at i:104139169 original size:63 final size:62
Alignment explanation
Indices: 104138969--104139169 Score: 174
Period size: 63 Copynumber: 3.2 Consensus size: 62
104138959 GTGTCGGTGC
* * * * * * * * *
104138969 AGGGAATGATTGCGCGT-ATTGTGATGCTTGTGTGAAATAAATTGGTGATGAATACGTCGGTGT
1 AGGGAATGATTGCGCGTGA--GTGGTGCTTGTGTAAAATAAAATGGTGTTGTATATGTTGATCT
* * * * *
104139032 AAGGAATGGTTGCACGTGCAGTGGTGCTTGTGTAAAATAAAATAGTGATTGT-TATGTTGTTGC-
1 AGGGAATGATTGCGCGTG-AGTGGTGCTTGTGTAAAATAAAATGGTG-TTGTATATGTTGAT-CT
* * *
104139095 AGGAAACGATTGCGCGTGAGGTGGTGCTTGTGTAAAATAAACTGGTGTTGTATATGTTGATCT
1 AGGGAATGATTGCGCGTGA-GTGGTGCTTGTGTAAAATAAAATGGTGTTGTATATGTTGATCT
104139158 AGGGAATGATTG
1 AGGGAATGATTG
104139170 TGTGTTTGTG
Statistics
Matches: 108, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
62 6 0.06
63 99 0.92
64 2 0.02
65 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.32, T:0.33
Consensus pattern (62 bp):
AGGGAATGATTGCGCGTGAGTGGTGCTTGTGTAAAATAAAATGGTGTTGTATATGTTGATCT
Found at i:104140451 original size:52 final size:51
Alignment explanation
Indices: 104140388--104140492 Score: 124
Period size: 52 Copynumber: 2.0 Consensus size: 51
104140378 TAATAATATG
104140388 AACAACATAATAACTAACT-ATTTAAAATTAAATAATTTAAA-AATATTTTCTT
1 AACAACATAATAACTAA-TGA-TTAAAATTAAATAA-TTAAATAATATTTTCTT
* ** *
104140440 AACATCATAATATTTAATGGATTAAAATTAAATTATTAAATAATATTTTCTT
1 AACAACATAATAACTAAT-GATTAAAATTAAATAATTAAATAATATTTTCTT
104140492 A
1 A
104140493 CCATTTTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
51 6 0.13
52 39 0.85
53 1 0.02
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.41
Consensus pattern (51 bp):
AACAACATAATAACTAATGATTAAAATTAAATAATTAAATAATATTTTCTT
Found at i:104141664 original size:14 final size:14
Alignment explanation
Indices: 104141645--104141675 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
104141635 ATGTATTCAG
104141645 TAAATATATATATA
1 TAAATATATATATA
104141659 TAAATATATATATA
1 TAAATATATATATA
104141673 TAA
1 TAA
104141676 CGTGATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:104141943 original size:15 final size:15
Alignment explanation
Indices: 104141914--104141945 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
104141904 CGATAATAAT
104141914 AATAATAATAATATA
1 AATAATAATAATATA
*
104141929 AATAATAATAGTATA
1 AATAATAATAATATA
104141944 AA
1 AA
104141946 GCGATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AATAATAATAATATA
Found at i:104141957 original size:3 final size:3
Alignment explanation
Indices: 104141906--104141938 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
104141896 AACGAAAACG
104141906 ATA ATA ATA ATA ATA ATA AT- ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
104141939 GTATAAAGCG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.86
4 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:104142184 original size:26 final size:26
Alignment explanation
Indices: 104142134--104142185 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
104142124 AATATGTATT
*
104142134 AAAATATATACGTAATAATAGAAATA
1 AAAATATATACGTAATAATAAAAATA
* *
104142160 AAAATATATACGTAGTATTAAAAATA
1 AAAATATATACGTAATAATAAAAATA
104142186 TATACATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.29
Consensus pattern (26 bp):
AAAATATATACGTAATAATAAAAATA
Found at i:104142536 original size:14 final size:13
Alignment explanation
Indices: 104142519--104142572 Score: 65
Period size: 14 Copynumber: 4.0 Consensus size: 13
104142509 AATGTGATAT
104142519 TAAAAATATATACA
1 TAAAAATATATA-A
104142533 TAAAAATATAATAA
1 TAAAAATAT-ATAA
104142547 TAAAAATATAT-A
1 TAAAAATATATAA
*
104142559 TATATAATATATAA
1 TA-AAAATATATAA
104142573 ATATATACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
12 3 0.08
13 10 0.28
14 20 0.56
15 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAAATATATAA
Found at i:104142584 original size:19 final size:18
Alignment explanation
Indices: 104142532--104142588 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
104142522 AAATATATAC
*
104142532 ATAAAAATATAATAATA-
1 ATAAATATATAATAATAT
*
104142549 AAAATATATATATATAATAT
1 ATAA-ATATATA-ATAATAT
104142569 ATAAATATATACATAATAT
1 ATAAATATATA-ATAATAT
104142588 A
1 A
104142589 GTATTAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 3 0.09
18 6 0.18
19 21 0.64
20 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAATATATAATAATAT
Found at i:104142789 original size:21 final size:21
Alignment explanation
Indices: 104142741--104142782 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
104142731 ATATAAGTGT
*
104142741 AATAATAGTAATAAAAATAAA
1 AATAATAGTAATAAAAAGAAA
*
104142762 AATAATAGTAATAATAAGAAA
1 AATAATAGTAATAAAAAGAAA
104142783 TTTAATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (21 bp):
AATAATAGTAATAAAAAGAAA
Found at i:104143501 original size:15 final size:16
Alignment explanation
Indices: 104143481--104143514 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
104143471 AAGAGATTCG
*
104143481 AAAAGAAA-AAAATAA
1 AAAAGAAAGAAAAGAA
104143496 AAAAGAAAGAAAAGAA
1 AAAAGAAAGAAAAGAA
104143512 AAA
1 AAA
104143515 GCATATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (16 bp):
AAAAGAAAGAAAAGAA
Found at i:104146231 original size:27 final size:28
Alignment explanation
Indices: 104146201--104146314 Score: 81
Period size: 28 Copynumber: 3.9 Consensus size: 28
104146191 CTATTTAGAA
* *
104146201 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCCATAGCCCAT
104146228 ATCAGTATTAATCTGGGCCATAGCCC-T
1 ATCAGTATTAATCTGGGCCATAGCCCAT
* *
104146255 ATTACAATATCAGAGCATACTGGGCC-TAGCCCAT
1 A-T-CAGTAT--TA--AT-CTGGGCCATAGCCCAT
* * *
104146289 ATCAGTATCAGTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCCATAGCCC
104146315 TATTACAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 19 0.27
28 21 0.30
29 5 0.07
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (28 bp):
ATCAGTATTAATCTGGGCCATAGCCCAT
Found at i:104146256 original size:62 final size:61
Alignment explanation
Indices: 104146178--104146322 Score: 172
Period size: 61 Copynumber: 2.4 Consensus size: 61
104146168 TCAAGCTTTA
* * * *
104146178 CTGGGCCTAAGCCCTATTTAGAA-ATCAGTG-TTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGGCCT-AGCCCTATTTACAATATCAGAGCAT-ACTGGGCC-TAGCCCATATCAGTATCAAT
*
104146240 CTGGGCCATAGCCCTA-TTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCC-TAGCCCTATTTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
104146301 CTGGGCCGTAGCCCTA-TTACAA
1 CTGGGCC-TAGCCCTATTTACAA
104146323 GTCGAGATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 44 0.59
62 28 0.38
63 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (61 bp):
CTGGGCCTAGCCCTATTTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
Found at i:104146368 original size:20 final size:19
Alignment explanation
Indices: 104146343--104146398 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
104146333 ATTGGGCCTT
*
104146343 GCCCATATTGACACAGTTGG
1 GCCCATATTAACACAGTT-G
* *
104146363 GCCCATTTTAATACAGTTG
1 GCCCATATTAACACAGTTG
* *
104146382 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
104146399 CTCATATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (19 bp):
GCCCATATTAACACAGTTG
Found at i:104150967 original size:27 final size:28
Alignment explanation
Indices: 104150937--104150989 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
104150927 CTATTTAGAA
* *
104150937 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCCATAGCCCAT
104150964 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAATCTGGGCCATAGCCC
104150990 TATTACAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (28 bp):
ATCAGTATTAATCTGGGCCATAGCCCAT
Found at i:104150992 original size:62 final size:61
Alignment explanation
Indices: 104150915--104151058 Score: 161
Period size: 61 Copynumber: 2.3 Consensus size: 61
104150905 CAAGCTTTAT
* * * *
104150915 TGGGCCTAAGCCCTATTTAGAA-ATCAGTG-TTAACTGGGCCTTAGCCCATATCAGTATTAATC
1 TGGGCCT-AGCCCTATTTACAATATCAGAGCAT-ACTGGGCC-TAGCCCATATCAGTATCAATC
* *
104150977 TGGGCCATAGCCCTA-TTACAATATCAGAGCATATTGGGCCTAGCCCATATCAGTATCAGTC
1 TGGGCC-TAGCCCTATTTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAATC
104151038 TGGGCCGTAGCCCTA-TTACAA
1 TGGGCC-TAGCCCTATTTACAA
104151059 GTCGAGATAT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
61 44 0.61
62 26 0.36
63 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (61 bp):
TGGGCCTAGCCCTATTTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAATC
Found at i:104151049 original size:61 final size:60
Alignment explanation
Indices: 104150949--104151086 Score: 188
Period size: 61 Copynumber: 2.3 Consensus size: 60
104150939 CAGTGTTAAC
*
104150949 TGGGCCTTAGCCCATATCAGTATTAATCTGGGCCATAGCCCTATTACAATATC-AGAGCATAT
1 TGGGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCTATTACAA-ATCGAGA-CATAT
* * * *
104151011 TGGGCCTAGCCCATATCAGTATCAGTCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCTATTACAAATCGAGACATAT
*
104151071 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
104151087 TGACACAGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
60 21 0.30
61 42 0.61
62 6 0.09
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCTATTACAAATCGAGACATAT
Found at i:104151104 original size:20 final size:19
Alignment explanation
Indices: 104151079--104151134 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
104151069 ATTGGGCCTT
*
104151079 GCCCATATTGACACAGTTGG
1 GCCCATATTAACACAGTT-G
* *
104151099 GCCCATTTTAATACAGTTG
1 GCCCATATTAACACAGTTG
* *
104151118 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
104151135 CTCATATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (19 bp):
GCCCATATTAACACAGTTG
Found at i:104160414 original size:20 final size:21
Alignment explanation
Indices: 104160380--104160433 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
104160370 TGATGATATT
*
104160380 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
104160401 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
104160421 TTTTATTATTTTA
1 TTATATTATTTTA
104160434 TTATATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:104175424 original size:18 final size:17
Alignment explanation
Indices: 104175401--104175434 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
104175391 AAACAAGCCT
104175401 AAAAAGAGAAAAAAAAGG
1 AAAAAGA-AAAAAAAAGG
*
104175419 AAAAAGAAAAGAAAAG
1 AAAAAGAAAAAAAAAG
104175435 AAAGAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAGG
Found at i:104175509 original size:51 final size:50
Alignment explanation
Indices: 104175413--104175543 Score: 122
Period size: 51 Copynumber: 2.5 Consensus size: 50
104175403 AAAGAGAAAA
* * *
104175413 AAAAGGAAAAAGAAAAGAAAAGAAAGAAAATTGGGCCGAATGGCCTAACAAGCCC
1 AAAA-GAAAAAG-AAA-AAAA-AAAGAAAAATGGACAGAATGGCCTAACAAG-CC
*
104175468 AAAAGAAAAAGAAAAAAAAAAGAAAAATGGACAAGAA-GGCCTAACTAGCC
1 AAAAGAAAAAGAAAAAAAAAAGAAAAATGGAC-AGAATGGCCTAACAAGCC
* * **
104175518 ACAAGGAAAAG-TGAAAAAAAGAAAAA
1 AAAAGAAAAAGAAAAAAAAAAGAAAAA
104175544 AAAAGAAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
49 13 0.19
50 11 0.16
51 22 0.33
52 7 0.10
53 3 0.04
54 7 0.10
55 4 0.06
ACGTcount: A:0.62, C:0.11, G:0.21, T:0.06
Consensus pattern (50 bp):
AAAAGAAAAAGAAAAAAAAAAGAAAAATGGACAGAATGGCCTAACAAGCC
Found at i:104178067 original size:4 final size:4
Alignment explanation
Indices: 104178058--104178110 Score: 81
Period size: 4 Copynumber: 13.2 Consensus size: 4
104178048 TTGCTTGTAC
*
104178058 ATAA ATAA ATAA ATAA ATAA ATAAA ATGA A-AA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA
104178106 ATAA A
1 ATAA A
104178111 GGCTCAAGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 2 0.04
4 39 0.87
5 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:104181597 original size:44 final size:45
Alignment explanation
Indices: 104181509--104181641 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 45
104181499 ACAGGACAGA
* *
104181509 ACAGAAATGAGCCATGTAAG-CCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
104181554 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
104181598 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
104181642 CAGGATAATA
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
44 36 0.49
45 19 0.26
46 18 0.25
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:104188937 original size:46 final size:44
Alignment explanation
Indices: 104188878--104188992 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
104188868 ACAGGACAGA
* *
104188878 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
104188924 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
104188968 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
104188993 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:104188973 original size:44 final size:45
Alignment explanation
Indices: 104188878--104189011 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
104188868 ACAGGACAGA
* *
104188878 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
104188924 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
104188968 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
104189012 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:104194723 original size:14 final size:15
Alignment explanation
Indices: 104194701--104194729 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
104194691 AAAAATATTC
104194701 TTATATTAGTATTTA
1 TTATATTAGTATTTA
104194716 TTAT-TTAGTATTTA
1 TTATATTAGTATTTA
104194730 AGAGGATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (15 bp):
TTATATTAGTATTTA
Found at i:104198408 original size:63 final size:63
Alignment explanation
Indices: 104198341--104198462 Score: 158
Period size: 63 Copynumber: 1.9 Consensus size: 63
104198331 TTAAAATGAC
* * *
104198341 ATATAAAAGTTTAAACTAAATAAT-ATAAAAAAGAAATTTAGAA-TACATAATATATAAAAATCT
1 ATATAAAAGTTTAAA-AAAATAATAATAAAAAAGAAATTT-GAAGTAAATAACATATAAAAATCT
* **
104198404 ATATAATAGTTTAAAAAAATAATAATGTAAAAGAAATTTGAAGTAAATAACATATAAAA
1 ATATAAAAGTTTAAAAAAATAATAATAAAAAAGAAATTTGAAGTAAATAACATATAAAA
104198463 TAATTTAAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
62 10 0.20
63 41 0.80
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.30
Consensus pattern (63 bp):
ATATAAAAGTTTAAAAAAATAATAATAAAAAAGAAATTTGAAGTAAATAACATATAAAAATCT
Found at i:104200231 original size:44 final size:44
Alignment explanation
Indices: 104200160--104200918 Score: 214
Period size: 44 Copynumber: 16.6 Consensus size: 44
104200150 TTGATCTGAC
* * *
104200160 CTACTGCATCTTCAAAG-GTATAGGATTTATAGCTTTAATCTGCT
1 CTACTGCAACTTCAGAGAG-ATAAGATTTATAGCTTTAATCTGCT
* ** * *
104200204 CTACTGCAACTTCAGAGAGATAAGATTTGCTATATTGAGTCTGCT
1 CTACTGCAACTTCAGAGAGATAAGATTT-ATAGCTTTAATCTGCT
* * * * * *
104200249 CCACTGTAACTTCAGGGAGATAAGACTTGT-GACTTTAATTTGCT
1 CTACTGCAACTTCAGAGAGATAAGATTTATAG-CTTTAATCTGCT
* * * * * * * **
104200293 CCACTGTAACTTTAGGGAGATGAGATTTGCCACGGTAAC-TTGATCCAAC-
1 CTACTGCAACTTCAGAGAGATAAGATTT---A---TAGCTTTAAT-CTGCT
* *
104200342 CTACTGCAACTTCAGAG-GTATAGGATTTATAGCTTTAATTTGCT
1 CTACTGCAACTTCAGAGAG-ATAAGATTTATAGCTTTAATCTGCT
* * ** * *
104200386 CTACTGCAACTTCAAAGAGATAAGATTTGCTATATTGAGTCTGCT
1 CTACTGCAACTTCAGAGAGATAAGATTT-ATAGCTTTAATCTGCT
* * * * *
104200431 -TCACTACAACTTTAGGGAAATAAGACTTAT-GACTTTAATCTGCT
1 CT-ACTGCAACTTCAGAGAGATAAGATTTATAG-CTTTAATCTGCT
* * * * * * * **
104200475 CCACTGTAACTTCAGGGAGATGAGATTCGCCAT-GGTAACTTGATCCAAC-
1 CTACTGCAACTTCAGAGAGATAAGATT---TATAGCT---TTAAT-CTGCT
* ** **
104200524 CTACTGCAACTCCAGAG-GTATTGGATTTATAGCTTTAATCTAAT
1 CTACTGCAACTTCAGAGAG-ATAAGATTTATAGCTTTAATCTGCT
* * ** * *
104200568 CTACTGCAACTTCAGAGAGGTAAGATTTGCTATATTGAGTCTGCT
1 CTACTGCAACTTCAGAGAGATAAGATTT-ATAGCTTTAATCTGCT
* * * * *
104200613 CCACTGCAACTTCTGGGAGATAAGACTCTGT-GACTTTAATCTGCT
1 CTACTGCAACTTCAGAGAGATAAGA-TTTATAG-CTTTAATCTGCT
* * * * * * * * **
104200658 CCACTGTAACTTCAGGGAGATGAGATTCACCATGGTAACTTGATCCAAC-
1 CTACTGCAACTTCAGAGAGATAAGATTTA-TA-GCT---TTAAT-CTGCT
* *
104200707 CTACTACAACTTCAGAG-GTATAGGATTTATAGCTTTAATCTGCT
1 CTACTGCAACTTCAGAGAG-ATAAGATTTATAGCTTTAATCTGCT
* * ** * * *
104200751 CTACTGTAACTTCAGAGAGATAAGATTTGCTATATTGAGTTTGCT
1 CTACTGCAACTTCAGAGAGATAAGATTT-ATAGCTTTAATCTGCT
* * *
104200796 CTACTGCAAATTCAGGGAGATAAGACTCTGTAATCTGTAGCTTTGATCTGCT
1 CTACTGCAACTTCAGAGAGATAAGA-T-T-T-A----TAGCTTTAATCTGCT
* ** *
104200848 CTACTGTAACTTCAGAGAGATAAGATTCGT-GACTTCAATCTGCT
1 CTACTGCAACTTCAGAGAGATAAGATTTATAG-CTTTAATCTGCT
* * * * *
104200892 CCACTACAACTTTAGGGAGACAAGATT
1 CTACTGCAACTTCAGAGAGATAAGATT
104200919 CGCCACTTCA
Statistics
Matches: 506, Mismatches: 157, Indels: 104
0.66 0.20 0.14
Matches are distributed among these distances:
43 9 0.02
44 201 0.40
45 163 0.32
46 8 0.02
47 9 0.02
48 5 0.01
49 71 0.14
50 8 0.02
51 1 0.00
52 31 0.06
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (44 bp):
CTACTGCAACTTCAGAGAGATAAGATTTATAGCTTTAATCTGCT
Found at i:104200725 original size:183 final size:182
Alignment explanation
Indices: 104200117--104200876 Score: 1106
Period size: 182 Copynumber: 4.1 Consensus size: 182
104200107 AGTCCACTAA
* * * * ** * *
104200117 AACTTTAGGGAGATAAGATTCGCCATGATAGATTTGATCTGACCTACTGCATCTTCAAAGGTATA
1 AACTTCAGGGAGATGAGATTCGCCATGGTA-ACTTGATCCAACCTACTGCAACTTCAGAGGTATA
104200182 GGATTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATATTGAGTCTG
65 GGATTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATATTGAGTCTG
* *
104200247 CTCCACTGTAACTTCAGGGAGATAAGACTTGTGACTTTAATTTGCTCCACTGT
130 CTCCACTGCAACTTCAGGGAGATAAGACTTGTGACTTTAATCTGCTCCACTGT
* * *
104200300 AACTTTAGGGAGATGAGATTTGCCACGGTAACTTGATCCAACCTACTGCAACTTCAGAGGTATAG
1 AACTTCAGGGAGATGAGATTCGCCATGGTAACTTGATCCAACCTACTGCAACTTCAGAGGTATAG
* *
104200365 GATTTATAGCTTTAATTTGCTCTACTGCAACTTCAAAGAGATAAGATTTGCTATATTGAGTCTGC
66 GATTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATATTGAGTCTGC
* * * * *
104200430 TTCACTACAACTTTAGGGAAATAAGACTTATGACTTTAATCTGCTCCACTGT
131 TCCACTGCAACTTCAGGGAGATAAGACTTGTGACTTTAATCTGCTCCACTGT
* *
104200482 AACTTCAGGGAGATGAGATTCGCCATGGTAACTTGATCCAACCTACTGCAACTCCAGAGGTATTG
1 AACTTCAGGGAGATGAGATTCGCCATGGTAACTTGATCCAACCTACTGCAACTTCAGAGGTATAG
** *
104200547 GATTTATAGCTTTAATCTAATCTACTGCAACTTCAGAGAGGTAAGATTTGCTATATTGAGTCTGC
66 GATTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATATTGAGTCTGC
*
104200612 TCCACTGCAACTTCTGGGAGATAAGACTCTGTGACTTTAATCTGCTCCACTGT
131 TCCACTGCAACTTCAGGGAGATAAGACT-TGTGACTTTAATCTGCTCCACTGT
* *
104200665 AACTTCAGGGAGATGAGATTCACCATGGTAACTTGATCCAACCTACTACAACTTCAGAGGTATAG
1 AACTTCAGGGAGATGAGATTCGCCATGGTAACTTGATCCAACCTACTGCAACTTCAGAGGTATAG
* *
104200730 GATTTATAGCTTTAATCTGCTCTACTGTAACTTCAGAGAGATAAGATTTGCTATATTGAGTTTGC
66 GATTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATATTGAGTCTGC
* * * *
104200795 TCTACTGCAAATTCAGGGAGATAAGACTCTGTAATCTGTAGCTTTGATCTGCTCTACTGT
131 TCCACTGCAACTTCAGGGAGATAAGACT-TG-----TG-A-CTTTAATCTGCTCCACTGT
* *
104200855 AACTTCAGAGAGATAAGATTCG
1 AACTTCAGGGAGATGAGATTCG
104200877 TGACTTCAAT
Statistics
Matches: 518, Mismatches: 51, Indels: 9
0.90 0.09 0.02
Matches are distributed among these distances:
182 281 0.54
183 198 0.38
188 2 0.00
189 1 0.00
190 36 0.07
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (182 bp):
AACTTCAGGGAGATGAGATTCGCCATGGTAACTTGATCCAACCTACTGCAACTTCAGAGGTATAG
GATTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATATTGAGTCTGC
TCCACTGCAACTTCAGGGAGATAAGACTTGTGACTTTAATCTGCTCCACTGT
Found at i:104200821 original size:365 final size:371
Alignment explanation
Indices: 104200117--104200876 Score: 1140
Period size: 365 Copynumber: 2.1 Consensus size: 371
104200107 AGTCCACTAA
* * ** * *
104200117 AACTTTAGGGAGATAAGATTCGCCATGATAGATTTGATCTGACCTACTGCATCTTCAAAGGTATA
1 AACTTCAGGGAGATAAGATTCGCCATGATAGACTTGATCCAACCTACTGCAACTCCAAAGGTATA
**
104200182 GGATTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATATTGAGTCTG
66 GGATTTATAGCTTTAATCTAATCTACTGCAACTTCAGAGAGATAAGATTTGCTATATTGAGTCTG
* * *
104200247 CTCCACTGTAACTTCAGGGAGATAAGACTTGTGACTTTAATTTGCTCCACTGTAACTTTAGGGAG
131 CTCCACTGCAACTTCAGGGAGATAAGACTTGTGACTTTAATCTGCTCCACTGTAACTTCAGGGAG
** *
104200312 ATGAGATTTGCCACGGTAACTTGATCCAACCTACTGCAACTTCAGAGGTATAGGATTTATAGCTT
196 ATGAGATTCACCACGGTAACTTGATCCAACCTACTACAACTTCAGAGGTATAGGATTTATAGCTT
* *
104200377 TAATTTGCTCTACTGCAACTTCAAAGAGATAAGATTTGCTATATTGAGTCTGCTTCACTACAACT
261 TAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGCTATATTGAGTCTGCTTCACTACAAAT
*
104200442 TTAGGGAAATAAGA-CT-T-A-TG-A-CTTTAATCTGCTCCACTGT
326 TCAGGGAAATAAGACCTGTAACTGTAGCTTTAATCTGCTCCACTGT
* * * *
104200482 AACTTCAGGGAGATGAGATTCGCCATGGTA-ACTTGATCCAACCTACTGCAACTCCAGAGGTATT
1 AACTTCAGGGAGATAAGATTCGCCATGATAGACTTGATCCAACCTACTGCAACTCCAAAGGTATA
*
104200546 GGATTTATAGCTTTAATCTAATCTACTGCAACTTCAGAGAGGTAAGATTTGCTATATTGAGTCTG
66 GGATTTATAGCTTTAATCTAATCTACTGCAACTTCAGAGAGATAAGATTTGCTATATTGAGTCTG
*
104200611 CTCCACTGCAACTTCTGGGAGATAAGACTCTGTGACTTTAATCTGCTCCACTGTAACTTCAGGGA
131 CTCCACTGCAACTTCAGGGAGATAAGACT-TGTGACTTTAATCTGCTCCACTGTAACTTCAGGGA
*
104200676 GATGAGATTCACCATGGTAACTTGATCCAACCTACTACAACTTCAGAGGTATAGGATTTATAGCT
195 GATGAGATTCACCACGGTAACTTGATCCAACCTACTACAACTTCAGAGGTATAGGATTTATAGCT
* * * *
104200741 TTAATCTGCTCTACTGTAACTTCAGAGAGATAAGATTTGCTATATTGAGTTTGC-TCTACTGCAA
260 TTAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGCTATATTGAGTCTGCTTC-ACTACAA
* * *
104200805 ATTCAGGGAGATAAGACTCTGTAATCTGTAGCTTTGATCTGCTCTACTGT
324 ATTCAGGGAAATAAGAC-CTGTAA-CTGTAGCTTTAATCTGCTCCACTGT
*
104200855 AACTTCAGAGAGATAAGATTCG
1 AACTTCAGGGAGATAAGATTCG
104200877 TGACTTCAAT
Statistics
Matches: 352, Mismatches: 33, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
364 118 0.34
365 190 0.54
367 2 0.01
368 1 0.00
369 1 0.00
371 2 0.01
372 1 0.00
373 37 0.11
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (371 bp):
AACTTCAGGGAGATAAGATTCGCCATGATAGACTTGATCCAACCTACTGCAACTCCAAAGGTATA
GGATTTATAGCTTTAATCTAATCTACTGCAACTTCAGAGAGATAAGATTTGCTATATTGAGTCTG
CTCCACTGCAACTTCAGGGAGATAAGACTTGTGACTTTAATCTGCTCCACTGTAACTTCAGGGAG
ATGAGATTCACCACGGTAACTTGATCCAACCTACTACAACTTCAGAGGTATAGGATTTATAGCTT
TAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGCTATATTGAGTCTGCTTCACTACAAAT
TCAGGGAAATAAGACCTGTAACTGTAGCTTTAATCTGCTCCACTGT
Found at i:104200919 original size:44 final size:44
Alignment explanation
Indices: 104200841--104200967 Score: 173
Period size: 44 Copynumber: 2.9 Consensus size: 44
104200831 TGTAGCTTTG
* * * *
104200841 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATTCGTGACTTCA
1 ATCTGCTCCACTGTAACTTCAGGGAGACAAGATTCGTCACTTCA
** * *
104200885 ATCTGCTCCACTACAACTTTAGGGAGACAAGATTCGCCACTTCA
1 ATCTGCTCCACTGTAACTTCAGGGAGACAAGATTCGTCACTTCA
*
104200929 ATCTGTTCCACTGTAACTTCAGGGAGACAAGATTCGTCA
1 ATCTGCTCCACTGTAACTTCAGGGAGACAAGATTCGTCA
104200968 TGGTGATTTC
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTGTAACTTCAGGGAGACAAGATTCGTCACTTCA
Found at i:104215805 original size:137 final size:137
Alignment explanation
Indices: 104215571--104215845 Score: 505
Period size: 137 Copynumber: 2.0 Consensus size: 137
104215561 GCCCATTCAA
104215571 GTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAACCCCTTATTC
1 GTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAACCCCTTATTC
104215636 AGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
66 AGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
104215701 CATTTGG
131 CATTTGG
* * *
104215708 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTATAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAACCCCTTATTC
* *
104215773 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
66 AGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
104215838 CATTTGG
131 CATTTGG
104215845 G
1 G
104215846 GAGACTACTC
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 133 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (137 bp):
GTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAACCCCTTATTC
AGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
CATTTGG
Found at i:104217658 original size:25 final size:26
Alignment explanation
Indices: 104217624--104217680 Score: 107
Period size: 25 Copynumber: 2.2 Consensus size: 26
104217614 CATGAAATTC
104217624 TTATCATGAAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCTA
104217649 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
104217675 TTATCA
1 TTATCA
104217681 ATTTGTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 24 0.77
26 7 0.23
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:104221640 original size:137 final size:136
Alignment explanation
Indices: 104221440--104221713 Score: 512
Period size: 137 Copynumber: 2.0 Consensus size: 136
104221430 AGCCCATTCA
104221440 GTAACAGTGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAACCCCTTATTCA
1 GTAACAGTGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAACCCCTTATTCA
104221505 GATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCC
66 GATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCC
*
104221570 GTTTGG
131 ATTTGG
*
104221576 GTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTC
1 GTAACAGT-GTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAACCCCTTATTC
*
104221641 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCC
65 AGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCC
104221706 CATTTGG
130 CATTTGG
104221713 G
1 G
104221714 GAGACTACTC
Statistics
Matches: 134, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 8 0.06
137 126 0.94
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
GTAACAGTGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAACCCCTTATTCA
GATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCC
ATTTGG
Found at i:104223530 original size:26 final size:26
Alignment explanation
Indices: 104223494--104223551 Score: 100
Period size: 26 Copynumber: 2.2 Consensus size: 26
104223484 CATGAAATTC
104223494 TTATCATGAAACATTTACCTAACAC-A
1 TTATCATGAAACATTTACCTAAC-CTA
104223520 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
104223546 TTATCA
1 TTATCA
104223552 ATTTGTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 1 0.03
26 30 0.97
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:104224102 original size:19 final size:19
Alignment explanation
Indices: 104224078--104224117 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
104224068 ACTTAGTTTG
104224078 TAACTAAGTTTTCAAGGAT
1 TAACTAAGTTTTCAAGGAT
104224097 TAACTAAGTTTTCAAGGAT
1 TAACTAAGTTTTCAAGGAT
104224116 TA
1 TA
104224118 CTCACTAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
TAACTAAGTTTTCAAGGAT
Found at i:104226291 original size:21 final size:20
Alignment explanation
Indices: 104226265--104226304 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
104226255 ATTTTTGGTA
104226265 TTTTTTCATAATTCCCTTAAT
1 TTTTTTCAT-ATTCCCTTAAT
**
104226286 TTTTTTGGTATTCCCTTAA
1 TTTTTTCATATTCCCTTAA
104226305 AATATTGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.20, C:0.17, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTTTCATATTCCCTTAAT
Found at i:104228110 original size:13 final size:14
Alignment explanation
Indices: 104228086--104228122 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
104228076 AAATTTATTC
104228086 TATTATAATAATTT
1 TATTATAATAATTT
104228100 TATTA-AATAATTT
1 TATTATAATAATTT
*
104228113 T-GTATAATAA
1 TATTATAATAA
104228123 CAAATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 2 0.10
13 14 0.67
14 5 0.24
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
TATTATAATAATTT
Found at i:104228665 original size:33 final size:33
Alignment explanation
Indices: 104228628--104228693 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
104228618 GGTATTTTGG
104228628 TGTTGCTTTTGCTACTGAT-TTTGTTGTTGTTTT
1 TGTTGCTTTTGCTACTGATATTT-TTGTTGTTTT
* * *
104228661 TGTTGTTTTTGCTGCTGCTATTTTTGTTGTTTT
1 TGTTGCTTTTGCTACTGATATTTTTGTTGTTTT
104228694 GGGTTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.05, C:0.09, G:0.21, T:0.65
Consensus pattern (33 bp):
TGTTGCTTTTGCTACTGATATTTTTGTTGTTTT
Found at i:104228703 original size:33 final size:33
Alignment explanation
Indices: 104228629--104228705 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
104228619 GTATTTTGGT
* *
104228629 GTTGCTTTTGCTACTGATTTTGTTGTTGTTTTT
1 GTTGTTTTTGCTACTGATTTTGTTGTTGTTTTG
* *
104228662 GTTGTTTTTGCTGCTGCTATTT-TTGTTGTTTTGG
1 GTTGTTTTTGCTACTGAT-TTTGTTGTTGTTTT-G
*
104228696 GTTTTTTTTG
1 GTTGTTTTTG
104228706 TGTGTATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 25 0.68
34 12 0.32
ACGTcount: A:0.04, C:0.08, G:0.23, T:0.65
Consensus pattern (33 bp):
GTTGTTTTTGCTACTGATTTTGTTGTTGTTTTG
Found at i:104229754 original size:12 final size:12
Alignment explanation
Indices: 104229737--104229761 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104229727 TCTAAATGTA
104229737 TATTTTATTAAT
1 TATTTTATTAAT
104229749 TATTTTATTAAT
1 TATTTTATTAAT
104229761 T
1 T
104229762 TTTATTTTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTTATTAAT
Found at i:104253305 original size:129 final size:128
Alignment explanation
Indices: 104253147--104253396 Score: 383
Period size: 129 Copynumber: 1.9 Consensus size: 128
104253137 TAAAAATAAG
* * * *
104253147 TAAGAATCCAGTTGAAATGGTAAAGTACAAATCTTCAAAATACAGTGTTTTAAACTTAAATTTTA
1 TAAGAATCCAGTTAAAATGGTAAAGTACAAATCATCAAAATACAGTGCTTTAAACTTAAATCTTA
* * *
104253212 TTATTTTTATGTTTTTTGTTTAAAAATATAACACTCTCAAAATAATATAATTTATTTTATAAAA
66 TTATTTTTATATTTTAT-TTAAAAAATATAACACTCTCAAAATAATATAATTTATTTTATAAAA
* *
104253276 TAAGAATCTAGTTAAAATGGTAAAGTACAAATCATCAAAATACAGTGCTTTAAATTTAAATCTTA
1 TAAGAATCCAGTTAAAATGGTAAAGTACAAATCATCAAAATACAGTGCTTTAAACTTAAATCTTA
* * *
104253341 TTATTTTTATATTTTATTTAAAAAATATAATAGTCTCCAAATAATATAATTTATTT
66 TTATTTTTATATTTTATTTAAAAAATATAACACTCTCAAAATAATATAATTTATTT
104253397 ACATTATTAA
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
128 35 0.32
129 74 0.68
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (128 bp):
TAAGAATCCAGTTAAAATGGTAAAGTACAAATCATCAAAATACAGTGCTTTAAACTTAAATCTTA
TTATTTTTATATTTTATTTAAAAAATATAACACTCTCAAAATAATATAATTTATTTTATAAAA
Found at i:104254586 original size:20 final size:21
Alignment explanation
Indices: 104254561--104254601 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
104254551 CAGTACAATA
*
104254561 ATGCAAATAA-ATGCCAGTAT
1 ATGCAAACAAGATGCCAGTAT
*
104254581 ATGCAAACAAGCTGCCAGTAT
1 ATGCAAACAAGATGCCAGTAT
104254602 TGTCGACAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (21 bp):
ATGCAAACAAGATGCCAGTAT
Found at i:104255694 original size:17 final size:18
Alignment explanation
Indices: 104255674--104255708 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
104255664 CGAATTACCT
104255674 GAATTAAAGTATT-AATC
1 GAATTAAAGTATTGAATC
104255691 GAATTAAAGTATTGAATC
1 GAATTAAAGTATTGAATC
104255709 ACTACATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (18 bp):
GAATTAAAGTATTGAATC
Found at i:104259842 original size:6 final size:6
Alignment explanation
Indices: 104259831--104259860 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
104259821 GAATCATGAT
*
104259831 TTTTAG TTTTAG CTTTAG TTTTAG TTTTAG
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG
104259861 AATTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.17, T:0.63
Consensus pattern (6 bp):
TTTTAG
Found at i:104264615 original size:47 final size:47
Alignment explanation
Indices: 104264463--104264639 Score: 211
Period size: 47 Copynumber: 3.8 Consensus size: 47
104264453 TGTAACCCGC
* *
104264463 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
*
104264509 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTTCACAT
* * * *
104264559 -C-TCA-CGAACTCGGATTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
*
104264603 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
104264640 TGTTCAACCA
Statistics
Matches: 110, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
45 1 0.01
46 37 0.34
47 54 0.49
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:104264636 original size:94 final size:93
Alignment explanation
Indices: 104264471--104264641 Score: 279
Period size: 94 Copynumber: 1.8 Consensus size: 93
104264461 GCCCATAAGT
* *
104264471 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCAGACTCAACTCAA
104264536 CAAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCGGATGCCTAGTTACATCTCAC
* * *
104264564 GAACTCGGATTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCAGACTCAACTCA
*
104264629 ACGAGTTCGGATG
65 ACAAGTTCGGATG
104264642 TTCAACCATC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 28 0.39
94 43 0.61
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCAGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:104265095 original size:30 final size:30
Alignment explanation
Indices: 104265061--104265120 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
104265051 CCTTAATACG
104265061 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
104265091 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
104265121 GGCTTGGGAA
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:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:104265990 original size:14 final size:14
Alignment explanation
Indices: 104265971--104266001 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
104265961 TGTGGAAGTA
104265971 GGAGTGAATAAGAT
1 GGAGTGAATAAGAT
104265985 GGAGTGAATAAGAT
1 GGAGTGAATAAGAT
104265999 GGA
1 GGA
104266002 CTTCATTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.39, T:0.19
Consensus pattern (14 bp):
GGAGTGAATAAGAT
Found at i:104268750 original size:16 final size:17
Alignment explanation
Indices: 104268729--104268761 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
104268719 CCCCAGATTG
104268729 TATTCT-AATGTTTGAT
1 TATTCTGAATGTTTGAT
*
104268745 TATTCTGTATGTTTGAT
1 TATTCTGAATGTTTGAT
104268762 ATCTGTGGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (17 bp):
TATTCTGAATGTTTGAT
Found at i:104270179 original size:18 final size:17
Alignment explanation
Indices: 104270144--104270191 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
104270134 ATTTTAAATG
*
104270144 ATATTTTATTAATAATA
1 ATATTTTAATAATAATA
104270161 ATATTTTAATAAGTAATA
1 ATATTTTAATAA-TAATA
*
104270179 ATATTTTATTAAT
1 ATATTTTAATAAT
104270192 TGATATTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATATTTTAATAATAATA
Found at i:104283114 original size:26 final size:24
Alignment explanation
Indices: 104283080--104283128 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
104283070 TAAATAAAAA
* *
104283080 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
104283106 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
104283129 AAAAATGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:104290886 original size:15 final size:16
Alignment explanation
Indices: 104290866--104290898 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
104290856 GGATGAACCG
104290866 ATGAAA-AGGTAGAAA
1 ATGAAAGAGGTAGAAA
104290881 ATGAAAGAGGTAGAAA
1 ATGAAAGAGGTAGAAA
104290897 AT
1 AT
104290899 AATGAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.27, T:0.15
Consensus pattern (16 bp):
ATGAAAGAGGTAGAAA
Found at i:104291208 original size:27 final size:26
Alignment explanation
Indices: 104291178--104291257 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
104291168 AATCTAAGAT
*
104291178 AAAAAACTATAAGTATCAATTAGGGAC
1 AAAAAA-TATAAGTACCAATTAGGGAC
* * *
104291205 AAAAAATCATAAATACCAATCAGGGAT
1 AAAAAAT-ATAAGTACCAATTAGGGAC
*
104291232 AAAAAATTATAAGTACCAATTTGGGA
1 AAAAAA-TATAAGTACCAATTAGGGA
104291258 GAAGTAAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.02
27 42 0.95
28 1 0.02
ACGTcount: A:0.53, C:0.11, G:0.14, T:0.23
Consensus pattern (26 bp):
AAAAAATATAAGTACCAATTAGGGAC
Found at i:104293936 original size:62 final size:62
Alignment explanation
Indices: 104293870--104294037 Score: 143
Period size: 61 Copynumber: 2.7 Consensus size: 62
104293860 ATATTTGAAA
104293870 TATTTTAAT-ATAATGTGATATAAAAATAATTA-TAT-TTAAAATAAT-ATTAAATTATATATT-
1 TATTTTAATCA-AAT-T-ATAT-AAAATAATTATTATATTAAAAT-ATGATTAAATTATATATTA
104293930 TT
61 TT
* ** *
104293932 TATTTTTATCAAATTATATTTAATAATTATTATATTAAAATATGATTAAATTATTTATTATT
1 TATTTTAATCAAATTATATAAAATAATTATTATATTAAAATATGATTAAATTATATATTATT
* *
104293994 TATTATTTATTATTAAATTACT-T-TAATAATTATTATATTAAAAT
1 TA-T-TTTA--ATCAAATTA-TATAAAATAATTATTATATTAAAAT
104294038 TTAATAACAA
Statistics
Matches: 90, Mismatches: 6, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
59 8 0.09
60 9 0.10
61 22 0.24
62 15 0.17
63 2 0.02
64 3 0.03
65 21 0.23
66 9 0.10
67 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (62 bp):
TATTTTAATCAAATTATATAAAATAATTATTATATTAAAATATGATTAAATTATATATTATT
Found at i:104293964 original size:24 final size:24
Alignment explanation
Indices: 104293897--104293964 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
104293887 ATATAAAAAT
* *
104293897 AATTATATTTAA-AA-TAATATTA
1 AATTATATTTAATAATTATTATCA
* * *
104293919 AATTATATATT-TTTATTTTTATCA
1 AATTATAT-TTAATAATTATTATCA
104293943 AATTATATTTAATAATTATTAT
1 AATTATATTTAATAATTATTAT
104293965 ATTAAAATAT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
22 8 0.24
23 5 0.15
24 21 0.62
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (24 bp):
AATTATATTTAATAATTATTATCA
Found at i:104293993 original size:7 final size:7
Alignment explanation
Indices: 104293981--104294007 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
104293971 ATATGATTAA
104293981 ATTATTT
1 ATTATTT
104293988 ATTATTT
1 ATTATTT
104293995 ATTATTT
1 ATTATTT
104294002 ATTATT
1 ATTATT
104294008 AAATTACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTATTT
Found at i:104294027 original size:65 final size:61
Alignment explanation
Indices: 104293894--104294037 Score: 188
Period size: 65 Copynumber: 2.3 Consensus size: 61
104293884 GTGATATAAA
104293894 AATAATTA-TAT-TTAAAATAATATTAAATTATATATTTTTATTTTTATCAAATTATATTT
1 AATAATTATTATATTAAAATAATATTAAATTATATATTTTTATTTTTATCAAATTATATTT
* *
104293953 AATAATTATTATATTAAAAT-ATGATTAAATTATTTATTATTTATTATTTATTATTAAATTA-CT
1 AATAATTATTATATTAAAATAAT-ATTAAATTA--TA-TATTT-TTATTT-TTATCAAATTATAT
104294016 TT
60 TT
104294018 AATAATTATTATATTAAAAT
1 AATAATTATTATATTAAAAT
104294038 TTAATAACAA
Statistics
Matches: 75, Mismatches: 2, Indels: 10
0.86 0.02 0.11
Matches are distributed among these distances:
59 8 0.11
60 5 0.07
61 16 0.21
63 2 0.03
64 5 0.07
65 29 0.39
66 10 0.13
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (61 bp):
AATAATTATTATATTAAAATAATATTAAATTATATATTTTTATTTTTATCAAATTATATTT
Found at i:104299599 original size:28 final size:27
Alignment explanation
Indices: 104299559--104299612 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
104299549 TGATTATAGA
*
104299559 AAAATTTTTAATAAATAAAA-AATATAT
1 AAAATTTTAAAT-AATAAAATAATATAT
*
104299586 AAAATTATTAAATATTAAAATAATATA
1 AAAATT-TTAAATAATAAAATAATATA
104299613 ATATGAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAATTTTAAATAATAAAATAATATAT
Found at i:104303343 original size:13 final size:13
Alignment explanation
Indices: 104303327--104303366 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
104303317 AAGAAGAAAC
104303327 AATTGAGTTAAAA
1 AATTGAGTTAAAA
*
104303340 AATT-AG--AAAC
1 AATTGAGTTAAAA
104303350 AATTGAGTTAAAA
1 AATTGAGTTAAAA
104303363 AATT
1 AATT
104303367 ATCATTGTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
10 7 0.32
11 2 0.09
12 2 0.09
13 11 0.50
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (13 bp):
AATTGAGTTAAAA
Found at i:104303347 original size:23 final size:23
Alignment explanation
Indices: 104303321--104303367 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
104303311 AAATGAAAGA
104303321 AGAAACAATTGAGTTAAAAAATT
1 AGAAACAATTGAGTTAAAAAATT
104303344 AGAAACAATTGAGTTAAAAAATT
1 AGAAACAATTGAGTTAAAAAATT
104303367 A
1 A
104303368 TCATTGTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.26
Consensus pattern (23 bp):
AGAAACAATTGAGTTAAAAAATT
Found at i:104306814 original size:147 final size:146
Alignment explanation
Indices: 104306627--104307063 Score: 646
Period size: 147 Copynumber: 3.0 Consensus size: 146
104306617 ATTATATTAA
* *
104306627 TTTAATAAAATAATATACGAAAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAA
1 TTTAA-AAAATAAGATACG--AA-AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAA
* *
104306692 AAAAATATAAAAAAACACTTAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAGAAA
62 AAAAATAT-AAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAA
*
104306757 TAAAATATGAAAATAATATATT
126 TAAAATACGAAAATAATATA-T
104306779 TTTAAAAAATAAGATAC-AAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAA
1 TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATT-AAAAA
* *
104306843 AATATAAATAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATGAAGAAATAAA
65 AATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAA
104306908 ATACGAAAATAATATAT
130 ATACGAAAATAATATAT
* **
104306925 TTTAAAAAATAAGATACGAAAAAAATACGAAGAAAGTG-TCAAAATCAGGGTTATTTATTAAATT
1 TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCT-AAAATCAGGGTTATTTATTAAAAA
* * * * *
104306989 AATATAAAAAATACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAA-AAATAAT
65 AATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAA
104307053 ATACGAAAATA
130 ATACGAAAATA
104307064 TTTTACTTAT
Statistics
Matches: 265, Mismatches: 17, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
145 17 0.06
146 73 0.28
147 147 0.55
148 12 0.05
151 11 0.04
152 5 0.02
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (146 bp):
TTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA
ATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAA
TACGAAAATAATATAT
Found at i:104307253 original size:18 final size:18
Alignment explanation
Indices: 104307208--104307253 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
104307198 CCTTTTTTTA
104307208 TTTTATTTTTCGTTTTCAG
1 TTTT-TTTTTCGTTTTCAG
* *
104307227 TGTTTTTTTCTTTTTCAG
1 TTTTTTTTTCGTTTTCAG
104307245 TTTTTTTTT
1 TTTTTTTTT
104307254 TACTGTTGCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.07, C:0.09, G:0.09, T:0.76
Consensus pattern (18 bp):
TTTTTTTTTCGTTTTCAG
Found at i:104310137 original size:12 final size:13
Alignment explanation
Indices: 104310109--104310138 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
104310099 ATGAGAAAAA
104310109 AAAAAACCCATTG
1 AAAAAACCCATTG
104310122 AAAAAACCCATT-
1 AAAAAACCCATTG
104310134 AAAAA
1 AAAAA
104310139 GAGGAGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.63, C:0.20, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAAAACCCATTG
Found at i:104310200 original size:16 final size:17
Alignment explanation
Indices: 104310175--104310207 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
104310165 AAGTTTAGGT
104310175 TTAAAA-TTTTAATTAA
1 TTAAAATTTTTAATTAA
*
104310191 TTAAACTTTTTAATTAA
1 TTAAAATTTTTAATTAA
104310208 AAATCTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAAATTTTTAATTAA
Found at i:104314086 original size:2 final size:2
Alignment explanation
Indices: 104314079--104314105 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
104314069 TATTAAAAAC
104314079 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
104314106 TAGCATGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104316890 original size:5 final size:5
Alignment explanation
Indices: 104316864--104316926 Score: 72
Period size: 5 Copynumber: 11.8 Consensus size: 5
104316854 ATGTGTTAAA
* *
104316864 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATT ATATTAT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATATT ATA-T-T
104316913 ATATT ATATT ATAT
1 ATATT ATATT ATAT
104316927 AAATAAGTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
5 36 0.72
6 10 0.20
7 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:104316917 original size:12 final size:12
Alignment explanation
Indices: 104316867--104316927 Score: 69
Period size: 12 Copynumber: 5.5 Consensus size: 12
104316857 TGTTAAAATA
*
104316867 TATATATTAAAT
1 TATATATTATAT
104316879 TAT-TATTATA-
1 TATATATTATAT
*
104316889 T-TATAGTATA-
1 TATATATTATAT
104316899 T-TATATTATAT
1 TATATATTATAT
104316910 TATATATTATAT
1 TATATATTATAT
104316922 TATATA
1 TATATA
104316928 AATAAGTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
9 1 0.02
10 16 0.37
11 7 0.16
12 19 0.44
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
TATATATTATAT
Found at i:104318264 original size:18 final size:19
Alignment explanation
Indices: 104318243--104318281 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
104318233 ATATATAGAT
104318243 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
104318261 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
104318280 AT
1 AT
104318282 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Done.