Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold373
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: 3053563
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 20
Found at i:1259289 original size:209 final size:208
Alignment explanation
Indices: 1258859--1259321 Score: 538
Period size: 209 Copynumber: 2.2 Consensus size: 208
1258849 TCGGAAGTAA
* * * * *
1258859 CGGGGTTGGAGTATCCCC-GATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAGAAATTAGTG
1 CGGGGTTGGAGTATCCCCTCA-GAAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAATGAGTG
* * * * * * *
1258923 TTTTGGAAATAAAATCAGAGTTGAAATATCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAAT
65 ATTTAGAAATAAAATAAGAGTTGAAATATCCCGATTATGGAGAATAGATGTTTCAAAAATAAAAT
* * * ** ** *
1258988 CGGGGTTCAAGTATCCCCTCGAGAATAATGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGT
130 CGGGATTCAAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
1259053 TTTAGAAATAAAAC
195 TTTAGAAATAAAAC
* *
1259067 CGGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGAATCCCCAATTGTGAAAAATCGA-T
1 C-GGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAAT-GAGT
* * * *
1259131 GATTTAGAAATAAGATAAGGGTTGAAGTGTCCCCGATTATAGGA-AATAGATGTTTCAAAAATAA
64 GATTTAGAAATAAAATAAGAGTTGAAATAT-CCCGATTAT-GGAGAATAGATGTTTCAAAAATAA
* ** *
1259195 AGTCGGGATTGGAGTATCCCCGT-GAAAATAATAGGGTTGGAGTATCCCCAATTATGAGAAATCA
127 AATCGGGATTCAAGTATCCCC-TCGAAAATAATAGGGTTGGAGTATCCCCAATTATGAAAAATCA
*
1259259 ATATTTTAGAAATAAAGC
191 ATATTTTAGAAATAAAAC
* * *
1259277 CGGGGTTGGAGTATCCTCTCAGAAGTAACGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCC
1259322 TGATGATATA
Statistics
Matches: 213, Mismatches: 36, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
208 1 0.00
209 113 0.53
210 95 0.45
211 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (208 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAATGAGTGA
TTTAGAAATAAAATAAGAGTTGAAATATCCCGATTATGGAGAATAGATGTTTCAAAAATAAAATC
GGGATTCAAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCCCAATTATGAAAAATCAATATT
TTAGAAATAAAAC
Found at i:1259317 original size:28 final size:29
Alignment explanation
Indices: 1259277--1259350 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
1259267 GAAATAAAGC
1259277 CGGGGTTGGAGTATCCTCTCA-GA-AGTAA
1 CGGGGTTGGAGTATCCTCTCATGATA-TAA
*
1259305 CGGGGTTGGAGTATCC-CTGATGATATAA
1 CGGGGTTGGAGTATCCTCTCATGATATAA
*
1259333 CGAGGTTGGAGTATCCTC
1 CGGGGTTGGAGTATCCTC
1259351 GATTGTGAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
27 3 0.07
28 36 0.88
29 2 0.05
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCTCTCATGATATAA
Found at i:1259467 original size:51 final size:51
Alignment explanation
Indices: 1259336--1259467 Score: 165
Period size: 51 Copynumber: 2.6 Consensus size: 51
1259326 GATATAACGA
* * * * *
1259336 GGTTGGAGTATCCTCGATTGTGAGAAATTAGTGTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGG
* * * * *
1259387 AGTTGAAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGG
*
1259438 GGTTGGAGTATCCCCGATTATGAAAAATTG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTG
1259468 AAAAACTTAA
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGG
Found at i:1261829 original size:13 final size:13
Alignment explanation
Indices: 1261811--1261836 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1261801 ACAAAGATCG
1261811 ATGTATCGATACA
1 ATGTATCGATACA
1261824 ATGTATCGATACA
1 ATGTATCGATACA
1261837 CTTCCTTAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1261847 original size:21 final size:21
Alignment explanation
Indices: 1261823--1261864 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1261813 GTATCGATAC
1261823 AATGTATCGATACACTTCCTT
1 AATGTATCGATACACTTCCTT
*
1261844 AATGTATCGATACATTTCCTT
1 AATGTATCGATACACTTCCTT
1261865 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACACTTCCTT
Found at i:1261917 original size:19 final size:20
Alignment explanation
Indices: 1261889--1261942 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
1261879 AGCGATACAT
* *
1261889 TGTATTGATACAAAACT-TA
1 TGTATCGATACAAAACTGAA
**
1261908 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACTGAA
1261929 TGTATCGATACAAA
1 TGTATCGATACAAA
1261943 TTATTGAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 11 0.41
20 3 0.11
21 13 0.48
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAAAACTGAA
Found at i:1262600 original size:40 final size:42
Alignment explanation
Indices: 1262556--1262854 Score: 105
Period size: 42 Copynumber: 7.2 Consensus size: 42
1262546 GTCCCACTTT
* *
1262556 TTGAGGACAAAGGAAAAG-A-GAATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAGAAGGAAAGAAA-AGTGTCCTGCTCC
** * * *
1262596 TTGAGGATGAAGGAAGAGAAGGAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAGAAGGAAAGAAAAGTGTCCTGCTCC
* **
1262638 TTGAGGACAAAGTG-AAA-AA-G--AG--TA-TGTCC--CATTT
1 TTGAGGACAAAG-GAAAAGAAGGAAAGAAAAGTGTCCTGC-TCC
* * * *
1262672 TTCGAGGAAAAAGGAAAA-AAGGAAAATGAAATGTGTCCTGTTCT
1 TT-GAGGACAAAGGAAAAGAAGG-AAA-GAAAAGTGTCCTGCTCC
* * * *
1262716 TTGAGGACTAGAAGGGAAAAAAAGGAAATAAAGAGCGTCCTGCTCT
1 TTGAGGAC-A-AA-GGAAAAGAAGGAAAGAAA-AGTGTCCTGCTCC
* * *
1262762 TTGAGGACAAAGGAGAAAG--GGAAAACGAAATGCGTCCTGCTCT
1 TTGAGGACAAAGGA-AAAGAAGG-AAA-GAAAAGTGTCCTGCTCC
* *
1262805 TTGAGGACAAAAG-AAAG-AGGAAA-ATAAAGTGAGTCCTGCTCT
1 TTGAGGACAAAGGAAAAGAAGGAAAGA-AAAGT--GTCCTGCTCC
*
1262847 TTAAGGAC
1 TTGAGGAC
1262855 TACAAAGTGC
Statistics
Matches: 201, Mismatches: 29, Indels: 56
0.70 0.10 0.20
Matches are distributed among these distances:
33 1 0.00
34 5 0.02
35 19 0.09
36 2 0.01
38 2 0.01
39 2 0.01
40 20 0.10
41 12 0.06
42 47 0.23
43 41 0.20
44 13 0.06
45 6 0.03
46 27 0.13
47 4 0.02
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.20
Consensus pattern (42 bp):
TTGAGGACAAAGGAAAAGAAGGAAAGAAAAGTGTCCTGCTCC
Found at i:1262722 original size:43 final size:44
Alignment explanation
Indices: 1262675--1262854 Score: 176
Period size: 42 Copynumber: 4.1 Consensus size: 44
1262665 CCCATTTTTC
* *
1262675 GAGGA-AAAAGGAAAAAAGGAAAATGAAA-TGTGTCCTGTTCTTT
1 GAGGACAAAAGGAAAAAAGGAAAAT-AAAGTGCGTCCTGCTCTTT
* *
1262718 GAGGACTAGAAGGGAAAAAAAGG-AAATAAAGAGCGTCCTGCTCTTT
1 GAGGAC-A-AAAGG-AAAAAAGGAAAATAAAGTGCGTCCTGCTCTTT
* * *
1262764 GAGGAC-AAAGGAGAAAGGGAAAACGAAA-TGCGTCCTGCTCTTT
1 GAGGACAAAAGGAAAAAAGGAAAA-TAAAGTGCGTCCTGCTCTTT
* *
1262807 GAGGACAAAA-G-AAAGAGGAAAATAAAGTGAGTCCTGCTCTTT
1 GAGGACAAAAGGAAAAAAGGAAAATAAAGTGCGTCCTGCTCTTT
*
1262849 AAGGAC
1 GAGGAC
1262855 TACAAAGTGC
Statistics
Matches: 113, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
41 3 0.03
42 33 0.29
43 33 0.29
44 6 0.05
45 4 0.04
46 26 0.23
47 8 0.07
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.18
Consensus pattern (44 bp):
GAGGACAAAAGGAAAAAAGGAAAATAAAGTGCGTCCTGCTCTTT
Found at i:1262841 original size:42 final size:42
Alignment explanation
Indices: 1262741--1262854 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 42
1262731 GAAAAAAAGG
*
1262741 AAATAAAGAGCGTCCTGCTCTTTGAGGACAAAGGAGAAAGGGA
1 AAATAAAGTGCGTCCTGCTCTTTGAGGACAAA-GAGAAAGGGA
*
1262784 AAACGAAA-TGCGTCCTGCTCTTTGAGGACAAA-AGAAAGAGGA
1 AAA-TAAAGTGCGTCCTGCTCTTTGAGGACAAAGAGAAAG-GGA
* *
1262826 AAATAAAGTGAGTCCTGCTCTTTAAGGAC
1 AAATAAAGTGCGTCCTGCTCTTTGAGGAC
1262855 TACAAAGTGC
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
41 9 0.14
42 25 0.40
43 26 0.41
44 3 0.05
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (42 bp):
AAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGAGAAAGGGA
Found at i:1263054 original size:55 final size:55
Alignment explanation
Indices: 1262991--1263181 Score: 222
Period size: 55 Copynumber: 3.4 Consensus size: 55
1262981 AAAAGAGAGA
* * *
1262991 GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACTAACTTATATGGGCTTTAAAAG
1 GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
1263046 GCGTCCTGCTCTTTGAGGACTAAGAA-GTTCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 GCATCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTT---A--A-AAG
* * * *
1263107 GCATCCTGCTCTTTAAAGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAG
1 GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
1263162 GCATCCTGCTTTTTGAGGAC
1 GCATCCTGCTCTTTGAGGAC
1263182 AAAAAGGGGA
Statistics
Matches: 114, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
55 60 0.53
56 5 0.04
58 2 0.02
60 4 0.04
61 43 0.38
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (55 bp):
GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:1263119 original size:61 final size:61
Alignment explanation
Indices: 1262991--1263162 Score: 207
Period size: 61 Copynumber: 2.9 Consensus size: 61
1262981 AAAAGAGAGA
* * *
1262991 GCATCCTGCTCTTTGAGGACT-AGAAGGTGCCACTAACTTATATGGGCTTT---A--AAAG
1 GCATCCTGCTCTTTGAGGACTAAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAG
* *
1263046 GCGTCCTGCTCTTTGAGGACTAAGAA-GTTCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 GCATCCTGCTCTTTGAGGACTAAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAG
* * *
1263107 GCATCCTGCTCTTTAAAGACTAA-AAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGG
1 GCATCCTGCTCTTTGAGGACTAAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1263163 CATCCTGCTT
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
55 40 0.40
56 4 0.04
58 1 0.01
60 3 0.03
61 51 0.52
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (61 bp):
GCATCCTGCTCTTTGAGGACTAAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAG
Found at i:1263215 original size:155 final size:154
Alignment explanation
Indices: 1263046--1263341 Score: 484
Period size: 155 Copynumber: 1.9 Consensus size: 154
1263036 GCTTTAAAAG
* *
1263046 GCGTCCTGCTCTTTGAGGACTAAGAAGTTCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
*
1263111 CCTGCTCTTTAAAGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCATCCTGCTTTTT
66 CCTGCTCTTTAAAGACTAAAAGGTGCCACCAGCTTGTGT-GGCTTTAAAAGGCATCCTGCTCTTT
1263176 GAGGACAAAAAGGGGAAAGGAGGGA
130 GAGGACAAAAAGGGGAAAGGAGGGA
**
1263201 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
* * * **
1263266 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGCTTTGAAAGGTGTCCTGCTCTTTG
66 CCTGCTCTTTAAAGACTAAAAGGTGCCACCAGCTTGTGTGGCTTTAAAAGGCATCCTGCTCTTTG
*
1263331 AGGACTAAAAG
131 AGGACAAAAAG
1263342 ACGCCACCAA
Statistics
Matches: 130, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
154 32 0.25
155 98 0.75
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (154 bp):
GCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
CCTGCTCTTTAAAGACTAAAAGGTGCCACCAGCTTGTGTGGCTTTAAAAGGCATCCTGCTCTTTG
AGGACAAAAAGGGGAAAGGAGGGA
Found at i:1263340 original size:54 final size:55
Alignment explanation
Indices: 1263201--1263394 Score: 239
Period size: 54 Copynumber: 3.4 Consensus size: 55
1263191 AAAGGAGGGA
**
1263201 GCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* *
1263262 GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGT-GGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* ** *
1263316 GTGTCCTGCTCTTTGAGGACTAAAAGACGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1263371 GCGTCCTGCTCTTTGAGGACTAAA
1 GCGTCCTGCTCTTTGAGGACTAAA
1263395 GGGCGAAATG
Statistics
Matches: 120, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
54 42 0.35
55 34 0.28
60 8 0.07
61 36 0.30
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:1263380 original size:209 final size:211
Alignment explanation
Indices: 1262838--1263497 Score: 804
Period size: 209 Copynumber: 3.1 Consensus size: 211
1262828 ATAAAGTGAG
* *
1262838 TCCTGCTCTTTAAGGACTACAAA-GTGCCACTAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTC
1 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT----AG--AAAGGCGTC
* ** * * *
1262902 CTACTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
59 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
* * * * *
1262967 AGGACTAAAGGGTGAAAAGAGAGAGCATCCTGCTCTTTGAGGACT-AGAAGGTGCCACTAACTTA
124 AGGACTAAAGGGCGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTG
* *
1263031 TATGGGCTTT------AAAAGGCG
188 TGTGGGCTTTAAAAGGAAAAGGCA
* *
1263049 TCCTGCTCTTTGAGGACTAAGAA-GTTCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCC
1 TCCTGCTCTTTGAGGACTAA-AAGGTGCCACCAACTTGTGTGGGCTTT---A-GA-AAGGCGTCC
* * * * *
1263113 TGCTCTTTAAAGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCATCCTGCTTTTTGA
60 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
* * *
1263178 GGACAAAAAGGG-GAAAGGAGGGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGT
125 GGAC-TAAAGGGCGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGT
1263242 GTGGGCTTTAAAAGGAAAAGGCA
189 GTGGGCTTTAAAAGGAAAAGGCA
* *
1263265 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGT-GGCTTT-GAAAGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCCTGCTCT
**
1263328 TTGAGGACTAAAAGACGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTA
66 TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTA
*
1263393 AAGGGCGAAATGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCT
131 AAGGGCGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCT
1263458 TTAAAAGGAAAAGGCA
196 TTAAAAGGAAAAGGCA
* *
1263474 TCATACTCTTTGAGGACTGAAAAG
1 TCCTGCTCTTTGAGGACT-AAAAG
1263498 TGGAAGGAGA
Statistics
Matches: 395, Mismatches: 40, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
208 6 0.02
209 159 0.40
210 128 0.32
211 52 0.13
215 8 0.02
216 42 0.11
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (211 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCCTGCTCT
TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTA
AAGGGCGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCT
TTAAAAGGAAAAGGCA
Found at i:1277107 original size:28 final size:28
Alignment explanation
Indices: 1277048--1277121 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
1277038 ATAAAGCCGG
*** * *
1277048 GGTTGGAGTATCCCCTCGGAAGTAACGG
1 GGTTGGAGTATCCCCGATGAAATAACGA
*
1277076 GGTTGGAGTATCCCCGATGAAATAATGA
1 GGTTGGAGTATCCCCGATGAAATAACGA
*
1277104 GGTTGGAGTATCCTCGAT
1 GGTTGGAGTATCCCCGAT
1277122 TATGAGAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGATGAAATAACGA
Found at i:1277167 original size:107 final size:107
Alignment explanation
Indices: 1276971--1277169 Score: 267
Period size: 107 Copynumber: 1.9 Consensus size: 107
1276961 AAAGTTGGGA
*
1276971 TTGGAGTATCCCCCTGAAAATAATAGGGTTCGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCATGAAAATAATAGGGTTCGAGTATCCCCAATTATGAGAAATCAATATTTTGG
* * * *
1277036 AAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGG
66 AAATAAAACCGGAGTTGAAATATCCCCTCGGAAGTAACGGGG
* * * * *
1277078 TTGGAGTATCCCCGATG-AAATAAT-GAGGTTGGAGTATCCTCGATTATGAGAAATTAATGTTTT
1 TTGGAGTATCCCC-ATGAAAATAATAG-GGTTCGAGTATCCCCAATTATGAGAAATCAATATTTT
*
1277141 GGAAATAAAATCGGAGTTGAAATATCCCC
64 GGAAATAAAACCGGAGTTGAAATATCCCC
1277170 GATTGTGGAG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
106 1 0.01
107 76 0.96
108 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (107 bp):
TTGGAGTATCCCCATGAAAATAATAGGGTTCGAGTATCCCCAATTATGAGAAATCAATATTTTGG
AAATAAAACCGGAGTTGAAATATCCCCTCGGAAGTAACGGGG
Found at i:1277173 original size:51 final size:51
Alignment explanation
Indices: 1277112--1277220 Score: 121
Period size: 51 Copynumber: 2.1 Consensus size: 51
1277102 GAGGTTGGAG
* * * *
1277112 TATCCTCGATTAT-GAGAAATTAATGTTTTGGAAATAAAATCGGAGTTGAAA
1 TATCCCCGATTATGGAG-AATTAATGTTTTAGAAATAAAACCGGAGTTCAAA
* ** * *
1277163 TATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTCAAG
1 TATCCCCGATTATGGAGAATTAATGTTTTAGAAATAAAACCGGAGTTCAAA
1277214 TATCCCC
1 TATCCCC
1277221 TCGAGAATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
51 45 0.94
52 3 0.06
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (51 bp):
TATCCCCGATTATGGAGAATTAATGTTTTAGAAATAAAACCGGAGTTCAAA
Found at i:1277256 original size:237 final size:240
Alignment explanation
Indices: 1276831--1277331 Score: 550
Period size: 237 Copynumber: 2.1 Consensus size: 240
1276821 TTTTGGAGAT
* *
1276831 AATAACGGGGTTGGAGTATCCCC--TCGAAAATAACGGGGTTGGAGAATCCCCGATTGTGAAAAA
1 AATAACGGGGTTGGAGTATCCCCGATCGAAAATAACGAGGTTGGAGAATCCCCGATTATGAAAAA
*
1276894 TCAATGATTTAGAAATAAGACAAGGGTTGAAGTATCCCCGATTATAGAAAATAGATGTTTCAAAA
66 TCAATGATTTAGAAATAAGACAAGGGTTGAAATATCCCCGATTATAGAAAATAGATGTTTCAAAA
*** ** *
1276959 ATAAAGTTGGGATTGGAGTATCCCCCTGAAAATAATAGGGTTCGAGTATCCCCAATTATGAGAAA
131 ATAAAACCGGGATTCAAGTATCCCCCTGAAAATAATAGGGTTCGAGTATCCCCAATTATGAAAAA
* *
1277024 TCAATATTTTGGAAAT-AAAGCCGGGGTTGGAGTATCCCCTCGGA
196 TCAATATTTTAGAAATAAAAGCCGGGGTTGGAGTATCCCCTCGAA
* * * * *
1277068 AGTAACGGGGTTGGAGTATCCCCGAT-G-AAATAATGAGGTTGGAGTATCCTCGATTATGAGAAA
1 AATAACGGGGTTGGAGTATCCCCGATCGAAAATAACGAGGTTGGAGAATCCCCGATTATGAAAAA
* * * * * * * * * * *
1277131 TTAATGTTTTGGAAATAA-A-ATCGGAGTTGAAATATCCCCGATTGTGGAGAATTGGTGTTTTAG
66 TCAATGATTTAGAAATAAGACA-AGG-GTTGAAATATCCCCGATTATAGAAAATAGATGTTTCAA
* * * * ** *
1277194 AAATAAAACCGGGGTTCAAGTAT-CCCCTCGAGAATAATGGGGTTGGAGTATCTTCGATTATGAA
129 AAATAAAACCGGGATTCAAGTATCCCCCT-GAAAATAATAGGGTTCGAGTATCCCCAATTATGAA
** * * *
1277258 AAATTGATGTTTTAGAAATAAAATCGGGGGTTGGAGTATCCCCTCGAA
193 AAATCAATATTTTAGAAATAAAAGCCGGGGTTGGAGTATCCCCTCGAA
* *
1277306 AATAACGAGGTTGGAGAATCCCCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
1277332 TGTGAAAAAT
Statistics
Matches: 216, Mismatches: 42, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
235 1 0.00
236 8 0.04
237 157 0.73
238 49 0.23
239 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (240 bp):
AATAACGGGGTTGGAGTATCCCCGATCGAAAATAACGAGGTTGGAGAATCCCCGATTATGAAAAA
TCAATGATTTAGAAATAAGACAAGGGTTGAAATATCCCCGATTATAGAAAATAGATGTTTCAAAA
ATAAAACCGGGATTCAAGTATCCCCCTGAAAATAATAGGGTTCGAGTATCCCCAATTATGAAAAA
TCAATATTTTAGAAATAAAAGCCGGGGTTGGAGTATCCCCTCGAA
Found at i:1277320 original size:80 final size:79
Alignment explanation
Indices: 1277164--1277358 Score: 237
Period size: 80 Copynumber: 2.5 Consensus size: 79
1277154 GAGTTGAAAT
* * * * *
1277164 ATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTCAAGTATCCCCTCGAGAAT
1 ATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTCAAGTATCCCCTCGAAAAT
* * *
1277229 AATGGGGTTGGAGT
66 AACGAGGTTGGAGA
** * **
1277243 ATCTTCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGGTTGGAGTATCCCCTCGAAAA
1 ATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAA-CCGGGGTTCAAGTATCCCCTCGAAAA
1277308 TAACGAGGTTGGAGA
65 TAACGAGGTTGGAGA
* * *
1277323 ATCCCCGATTGTGAAAAATCGATGATTTAGAAATAA
1 ATCCCCGATTATGAAAAATTGATGTTTTAGAAATAA
1277359 GACAAGGGTT
Statistics
Matches: 97, Mismatches: 18, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
79 32 0.33
80 65 0.67
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (79 bp):
ATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTCAAGTATCCCCTCGAAAAT
AACGAGGTTGGAGA
Found at i:1277430 original size:51 final size:51
Alignment explanation
Indices: 1277311--1277481 Score: 127
Period size: 51 Copynumber: 3.4 Consensus size: 51
1277301 TCGAAAATAA
* * * * * * *
1277311 CGAGGTTGGAGAATCCCCGATTGTGAAAAATCGATGATTT-AGAAAT-AAGA
1 CGAGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTCAAAAATAAAGT
* * * * *
1277361 CAAGGGTTGAAGTGTCCCCGATTAT-AGGAAAT-AGATGTTTCAAAAATAAAGT
1 CGA-GGTTGGAGTATCCCCAATTATGA-GAAATCA-ATATTTCAAAAATAAAGT
***
1277413 CG-GGATTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGT
1 CGAGG-TTGGAGTATCCCCAATTATGAGAAATCAATATTTCAAAAATAAAGT
1277464 CGAGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
1277482 TCGTAAGTAA
Statistics
Matches: 94, Mismatches: 18, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
50 8 0.09
51 78 0.83
52 8 0.09
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (51 bp):
CGAGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTCAAAAATAAAGT
Found at i:1277498 original size:28 final size:29
Alignment explanation
Indices: 1277464--1277535 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 29
1277454 GAAATAAAGT
*
1277464 CGAGGTTGGAGTATCCCCTCG-T-AAGTAA
1 CGAGGTTGGAGTATCCCC-CGATGAAATAA
*
1277492 TGAGGTTGGAGTAT-CCCCGATGAAATAA
1 CGAGGTTGGAGTATCCCCCGATGAAATAA
1277520 CGAGGTTGGAGTATCC
1 CGAGGTTGGAGTATCC
1277536 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 2 0.05
27 4 0.11
28 31 0.82
29 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (29 bp):
CGAGGTTGGAGTATCCCCCGATGAAATAA
Found at i:1277653 original size:50 final size:51
Alignment explanation
Indices: 1277523--1277653 Score: 147
Period size: 51 Copynumber: 2.6 Consensus size: 51
1277513 GAAATAACGA
* * * * * *
1277523 GGTTGGAGTATCCTCGATTGTGACAAATTAGTGTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGG
* * * * *
1277574 AGTTGAAATATCCCCGATTATGGAGAATTGGTGTTTTAGAAAT-AAACCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGG
*
1277624 GGTTGGAGTATCCCCAATTATGAAAAATTG
1 GGTTGGAGTATCCCCGATTATGAAAAATTG
1277654 AGAAACTTAA
Statistics
Matches: 63, Mismatches: 17, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
50 30 0.48
51 33 0.52
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGG
Found at i:1280105 original size:19 final size:20
Alignment explanation
Indices: 1280081--1280134 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
1280071 AGCGATACAT
*
1280081 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGAA
**
1280100 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACTGAA
1280121 TGTATCGATACAAA
1 TGTATCGATACAAA
1280135 TTATTGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAACTGAA
Found at i:1281600 original size:161 final size:160
Alignment explanation
Indices: 1281424--1281845 Score: 468
Period size: 161 Copynumber: 2.6 Consensus size: 160
1281414 CACCATCGGA
1281424 GATACTCTAACCCCGCTTTCACTTCCAAAATATCAAAAATTTCACCATTGGGGATACTCTAACCC
1 GATACTCTAACCCCGCTTTCACTTCCAAAATATCAAAAATTTCACCATTGGGGATACTCTAACCC
* * *** * * *
1281489 TATCATCTCCAAAGCGATACTCCAACCCTATTTTCGCTTCCAAAGACATTGATTTTTTCACAATT
66 TATCATCTCCAAAG-GATACTCCAACCCCATTTTCGCTTCCAAAAACACCAAATTTTTAACAATC
* * *
1281554 GGGGACACTCCAACCTCATCATTTCTAAAGG
130 GGGGACACTCCAACCCCATCATCTCCAAAGG
* * * * * *
1281585 GATATTCTAACCCCGCTTTTACTTCCAAAATATCAAAATTTTCGCCATTGGGGATGCTCCAACCC
1 GATACTCTAACCCCGCTTTCACTTCCAAAATATCAAAAATTTCACCATTGGGGATACTCTAACCC
* * * * *
1281650 T-GCTATCTCCAAGGGGATACTCTAACCCCATTTTCGCTTCTAAAAACACCAAATTTTTAACTAT
66 TATC-ATCTCCAA-AGGATACTCCAACCCCATTTTCGCTTCCAAAAACACCAAATTTTTAACAAT
* * * *
1281714 CGTGGATACTCTAACCCCATCATCTCCAAGGG
129 CGGGGACACTCCAACCCCATCATCTCCAAAGG
* * *** *
1281746 GATACTCCAAACCTATTTTCACTTCCAAAATATCAAAAAATTTCACCATTAGGGATACTCTAACC
1 GATACTCTAACCCCGCTTTCACTTCCAAAATATC-AAAAATTTCACCATTGGGGATACTCTAACC
* * * *
1281811 CTATTATTTTCAAGAGGATACTCCAACCCCGTTTT
65 CTATCATCTCCAA-AGGATACTCCAACCCCATTTT
1281846 TATTTTCCAA
Statistics
Matches: 212, Mismatches: 45, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
160 1 0.00
161 158 0.75
162 53 0.25
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (160 bp):
GATACTCTAACCCCGCTTTCACTTCCAAAATATCAAAAATTTCACCATTGGGGATACTCTAACCC
TATCATCTCCAAAGGATACTCCAACCCCATTTTCGCTTCCAAAAACACCAAATTTTTAACAATCG
GGGACACTCCAACCCCATCATCTCCAAAGG
Found at i:1281645 original size:80 final size:80
Alignment explanation
Indices: 1281424--1281871 Score: 287
Period size: 81 Copynumber: 5.5 Consensus size: 80
1281414 CACCATCGGA
* * *
1281424 GATACTCTAACCCCGCTTTCACTTCCAAAATATCAAAAATTTCACCATTGGGGATACTCTAACCC
1 GATACTCTAACCCCGCTTTTACTTCCAAAATATCAAAATTTTCACCATTGGGGATACTCCAACCC
1281489 TATCATCTCCAAAGC
66 TATCATCTCCAAAGC
* ** * * ** ** * *
1281504 GATACTCCAA-CCCTATTTTCGCTTCCAAAGACATTGATTTTTTCACAATTGGGGACACTCCAA-
1 GATACTCTAACCCCGCTTTT-ACTTCCAAA-ATATCAAAATTTTCACCATTGGGGATACTCCAAC
* * *
1281567 CCTCATCATTTCTAAAGG
64 CCT-ATCATCTCCAAAGC
* * *
1281585 GATATTCTAACCCCGCTTTTACTTCCAAAATATCAAAATTTTCGCCATTGGGGATGCTCCAACCC
1 GATACTCTAACCCCGCTTTTACTTCCAAAATATCAAAATTTTCACCATTGGGGATACTCCAACCC
* * *
1281650 T-GCTATCTCCAAGGG
66 TATC-ATCTCCAAAGC
* * * * * * * * * * *
1281665 GATACTCTAACCCC-ATTTTCGCTTCTAAAAACACCAAATTTTTAACTATCGTGGATACTCTAAC
1 GATACTCTAACCCCGCTTTT-ACTTC-CAAAATATCAAAATTTTCACCATTGGGGATACTCCAAC
* * *
1281729 CCCATCATCTCCAAGGG
64 CCTATCATCTCCAAAGC
* * ** * * *
1281746 GATACTCCAA-ACCTATTTTCACTTCCAAAATATCAAAAAATTTCACCATTAGGGATACTCTAAC
1 GATACTCTAACCCCGCTTTT-ACTTCCAAAATATC-AAAATTTTCACCATTGGGGATACTCCAAC
* * *
1281810 CCTATTATTTTCAAGAG-
64 CCTATCATCTCCAA-AGC
* * * ** *
1281827 GATACTCCAACCCCGTTTTTATTTTCCAAAACGTCCAAATTTTCA
1 GATACTCTAACCCCGCTTTTA-CTTCCAAAATATCAAAATTTTCA
1281872 TCTCAATGGA
Statistics
Matches: 277, Mismatches: 77, Indels: 27
0.73 0.20 0.07
Matches are distributed among these distances:
79 11 0.04
80 77 0.28
81 164 0.59
82 25 0.09
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (80 bp):
GATACTCTAACCCCGCTTTTACTTCCAAAATATCAAAATTTTCACCATTGGGGATACTCCAACCC
TATCATCTCCAAAGC
Found at i:1281802 original size:81 final size:80
Alignment explanation
Indices: 1281440--1281839 Score: 338
Period size: 81 Copynumber: 5.0 Consensus size: 80
1281430 CTAACCCCGC
* * * *
1281440 TTTCACTTCCAAAATATCAAAAATTTCACCATTGGGGATACTCTAACCCTATCATCTCCAAAGCG
1 TTTCACTTCCAAAATATCAAAATTTTCACCATTGGGGATACTCTAACCCCATCATCTCCAAGGGG
1281505 ATACTCCAACCCTAT
66 ATACTCCAACCCTAT
* * ** ** * * * * * * *
1281520 TTTCGCTTCCAAAGACATTGATTTTTTCACAATTGGGGACACTCCAACCTCATCATTTCTAAAGG
1 TTTCACTTCCAAA-ATATCAAAATTTTCACCATTGGGGATACTCTAACCCCATCATCTCCAAGGG
* * **
1281585 GATATTCTAACCCCGCT
65 GATACTCCAA-CCCTAT
* * *
1281602 TTT-ACTTCCAAAATATCAAAATTTTCGCCATTGGGGATGCTCCAA-CCC-TGCTATCTCCAAGG
1 TTTCACTTCCAAAATATCAAAATTTTCACCATTGGGGATACTCTAACCCCAT-C-ATCTCCAAGG
* *
1281664 GGATACTCTAACCCCAT
64 GGATACTCCAACCCTAT
* * * * * * * * *
1281681 TTTCGCTTCTAAAAACACCAAATTTTTAACTATCGTGGATACTCTAACCCCATCATCTCCAAGGG
1 TTTCACTTC-CAAAATATCAAAATTTTCACCATTGGGGATACTCTAACCCCATCATCTCCAAGGG
*
1281746 GATACTCCAAACCTAT
65 GATACTCCAACCCTAT
* * * * * * *
1281762 TTTCACTTCCAAAATATCAAAAAATTTCACCATTAGGGATACTCTAACCCTATTATTTTCAAGAG
1 TTTCACTTCCAAAATATC-AAAATTTTCACCATTGGGGATACTCTAACCCCATCATCTCCAAGGG
1281827 GATACTCCAACCC
65 GATACTCCAACCC
1281840 CGTTTTTATT
Statistics
Matches: 243, Mismatches: 68, Indels: 17
0.74 0.21 0.05
Matches are distributed among these distances:
78 1 0.00
79 10 0.04
80 63 0.26
81 157 0.65
82 11 0.05
83 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.30
Consensus pattern (80 bp):
TTTCACTTCCAAAATATCAAAATTTTCACCATTGGGGATACTCTAACCCCATCATCTCCAAGGGG
ATACTCCAACCCTAT
Found at i:1281911 original size:28 final size:28
Alignment explanation
Indices: 1281879--1281942 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
1281869 TCATCTCAAT
*
1281879 GGATACTCCAA-CTCCACCATTTCCAAGG
1 GGATACTCCAATC-CCACCAATTCCAAGG
* * * *
1281907 GGATAGTCTAATCCCATCAATTCCGAGG
1 GGATACTCCAATCCCACCAATTCCAAGG
1281935 GGATACTC
1 GGATACTC
1281943 TAACCCTATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (28 bp):
GGATACTCCAATCCCACCAATTCCAAGG
Found at i:1283327 original size:156 final size:155
Alignment explanation
Indices: 1283041--1283344 Score: 391
Period size: 156 Copynumber: 1.9 Consensus size: 155
1283031 TGCCTTTAAA
*
1283041 TATATCTTTGACGTGAAAGTATCTCGACAACCTTAAAAGACTTAAAAATGATCACAAATGAGATG
1 TATATCTTTGACATGAAAGTATCTCGACAACCTTAAAAGACTTAAAAATGATCACAAATGAGATG
* * *
1283106 AACATATCCCAAATGCACACTTTTGGCATAAAAGCATCCTAGTGACAACCTAAGACTTGATTCTA
66 AACATATCCCAAATGCACACCTTTGGCATAAAAGCATCCTAGTGACAACCGAAGACTCGATTCTA
1283171 -GAAAAATTACGAAAATGACCCTAGC
131 GGAAAAA-TACGAAAATGACCCTAGC
* * * * *
1283196 TATATCTTTGACAT-AAAGGTATCTCGATAA-CTCTAAAGGACTTAAAAAATTATTATAAATGAG
1 TATATCTTTGACATGAAA-GTATCTCGACAACCT-TAAAAGACTT-AAAAATGATCACAAATGAG
* * * * *
1283259 ATGAACCTATCCTAAATGCATACCTTTGGCATAAAAGCATCCTAGTGACAATCGAGGACTCG-TA
63 ATGAACATATCCCAAATGCACACCTTTGGCATAAAAGCATCCTAGTGACAACCGAAGACTCGAT-
*
1283323 TCTAGGGAAAAATACTAAAATG
127 TCTA-GGAAAAATACGAAAATG
1283345 CTCTTACGGG
Statistics
Matches: 128, Mismatches: 15, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
154 5 0.04
155 34 0.27
156 74 0.58
157 9 0.07
158 6 0.05
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (155 bp):
TATATCTTTGACATGAAAGTATCTCGACAACCTTAAAAGACTTAAAAATGATCACAAATGAGATG
AACATATCCCAAATGCACACCTTTGGCATAAAAGCATCCTAGTGACAACCGAAGACTCGATTCTA
GGAAAAATACGAAAATGACCCTAGC
Found at i:1283738 original size:23 final size:22
Alignment explanation
Indices: 1283687--1283738 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
1283677 GATTAAAACA
*
1283687 CAAAATTAAACATCAAATATAT
1 CAAAATTAAACACCAAATATAT
* *
1283709 TATAATT-AACACCAAAATCATAT
1 CAAAATTAAACACC-AAAT-ATAT
1283732 CAAAATT
1 CAAAATT
1283739 CACAAGCAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 5 0.22
22 9 0.39
23 9 0.39
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (22 bp):
CAAAATTAAACACCAAATATAT
Found at i:1284260 original size:164 final size:163
Alignment explanation
Indices: 1283678--1284288 Score: 544
Period size: 163 Copynumber: 3.7 Consensus size: 163
1283668 TCCCTACGTG
* * * *
1283678 ATTAAAACACAAAATTAAACATCAAATATATTATAATTAACACCAAAATCATAT-C-AAAATTCA
1 ATTAAAACACAAAATTAAACATCAAACATATCA-AATCAACACCAAAATCAAATACAAAAATT-A
* * ** * * * *
1283741 CAAGCAAGATTCAG-TTACCTTCCTTTGGCCTTAGAATAAAA-TTTTCAATTATTTACGAATT-G
64 CAAGAAAGATTCGGCCAACC-ACTTTTGGCCTTAGAACAAAATTTTTC-A-TATTTAC-AATTAA
* * * * *
1283803 ACCTTTAAACTTTTTGAATTTGCAAATTGGTCATTAC-ATA
125 ACC-CTAAACTTTTTAAAATTACAAATTGGTCCTT-CTATA
* * * * * * * *
1283843 ATTAAAACACAAAATCAAGCATCAAATATATTAAA-AAACACCAAAA-AAAATACAAAAGTCACA
1 ATTAAAACACAAAATTAAACATCAAACATATCAAATCAACACCAAAATCAAATACAAAAATTACA
* * ** * * * *
1283906 AGAAAAATTTGGCCAAGTAAC-TTTGGCCTTGGAACAAAAGTTTTAATATTTACACTTAAACCCA
66 AGAAAGATTCGGCCAA-CCACTTTTGGCCTTAGAACAAAATTTTTCATATTTACAATTAAACCC-
* * *
1283970 TAAACTTTTTAAAATTACAAATTAGTCCCTATATA
129 TAAACTTTTTAAAATTACAAATTGGTCCTTCTATA
* * * * * *
1284005 ATTAAAGCAC--AATTAAATATCAAACATATCAAAATCCACACAAAAATCAGATAAAAAAATTAC
1 ATTAAAACACAAAATTAAACATCAAACATATC-AAATCAACACCAAAATCAAATACAAAAATTAC
* ** * *
1284068 AAGAAAGATTCGTCCAAGTACTTTTGGCCTTAGAATAAAATTTTTCATATTTACATTTAAATCCC
65 AAGAAAGATTCGGCCAACCACTTTTGGCCTTAGAACAAAATTTTTCATATTTACAATTAAA-CCC
*
1284133 TAAACTTTTTAAAATTACAAGTTGGTCCTTCTATA
129 TAAACTTTTTAAAATTACAAATTGGTCCTTCTATA
* * * *
1284168 ATTAAAACACAAAATAAAATATCAAACATATCAAATCCACACCAAAATCAAATCCAAAAATTACA
1 ATTAAAACACAAAATTAAACATCAAACATATCAAATCAACACCAAAATCAAATACAAAAATTACA
1284233 AGAAAGATTCGGCCAACCACTTTTGGCC-TATGAACAAAATTTTTTCATATTTACAA
66 AGAAAGATTCGGCCAACCACTTTTGGCCTTA-GAACAAAA-TTTTTCATATTTACAA
1284289 ATTTGCCCTT
Statistics
Matches: 361, Mismatches: 68, Indels: 34
0.78 0.15 0.07
Matches are distributed among these distances:
160 15 0.04
161 6 0.02
162 59 0.16
163 140 0.39
164 76 0.21
165 65 0.18
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (163 bp):
ATTAAAACACAAAATTAAACATCAAACATATCAAATCAACACCAAAATCAAATACAAAAATTACA
AGAAAGATTCGGCCAACCACTTTTGGCCTTAGAACAAAATTTTTCATATTTACAATTAAACCCTA
AACTTTTTAAAATTACAAATTGGTCCTTCTATA
Found at i:1285885 original size:10 final size:10
Alignment explanation
Indices: 1285870--1285894 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1285860 TGTATCACTA
1285870 TTCATTACTG
1 TTCATTACTG
1285880 TTCATTACTG
1 TTCATTACTG
1285890 TTCAT
1 TTCAT
1285895 GTATCGATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.52
Consensus pattern (10 bp):
TTCATTACTG
Found at i:1291047 original size:11 final size:12
Alignment explanation
Indices: 1291025--1291049 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1291015 TACAATGCCT
1291025 AAACCAAAAAAA
1 AAACCAAAAAAA
1291037 AAACCAAAAAAA
1 AAACCAAAAAAA
1291049 A
1 A
1291050 GGAGAGATGT
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:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (12 bp):
AAACCAAAAAAA
Found at i:1292315 original size:41 final size:42
Alignment explanation
Indices: 1292260--1292361 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 42
1292250 TTTCCTTTTT
* *
1292260 CCTTTGTCCTCAAGGAGCAGGACTCATTTCA-TCCCTTTTCC
1 CCTTTGTCCTCAAGGAGCAGGACGCACTTCATTCCCTTTTCC
* * * **
1292301 CCTTTGTCCTCAAGGAACATGACGCACTTCATTTCCTTTTTT
1 CCTTTGTCCTCAAGGAGCAGGACGCACTTCATTCCCTTTTCC
* *
1292343 TCTTTGTCCTCAAAGAGCA
1 CCTTTGTCCTCAAGGAGCA
1292362 AGACACCCAT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 27 0.54
42 23 0.46
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (42 bp):
CCTTTGTCCTCAAGGAGCAGGACGCACTTCATTCCCTTTTCC
Found at i:1292574 original size:31 final size:32
Alignment explanation
Indices: 1292536--1292626 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 32
1292526 AAGCCTTAGA
*
1292536 AGTCAAAGCCCACACGAGTTGGTGGCACCCT-
1 AGTCAAAGCCCACACAAGTTGGTGGCACCCTG
* * * * *
1292567 AGTCAAAGCCCGCCCAAGTTAGCGACA-CCTG
1 AGTCAAAGCCCACACAAGTTGGTGGCACCCTG
* *
1292598 AGTAAAAGCCCACACAAGCTGGTGGCACC
1 AGTCAAAGCCCACACAAGTTGGTGGCACC
1292627 TAAGTTCGAG
Statistics
Matches: 45, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
30 3 0.07
31 41 0.91
32 1 0.02
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.13
Consensus pattern (32 bp):
AGTCAAAGCCCACACAAGTTGGTGGCACCCTG
Found at i:1292679 original size:148 final size:149
Alignment explanation
Indices: 1292455--1292744 Score: 429
Period size: 148 Copynumber: 2.0 Consensus size: 149
1292445 ACCCAAATCT
* * * *
1292455 AAGCCCGCACAAGTTGGCGACACCTAAGTTCGAGCCAATCCCAAATTAGTTGGCACCTGTCTAAA
1 AAGCCCACACAAGCTGGCGACACCTAAGTTCGAGCCAAGCCCAAATTAGTTGGCACCTATCTAAA
**
1292520 GAGATCAAGCCTTAGAA-GTCAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCCCAA
66 GAGATCAAGCCTTAGAATGTCAAAGCCCACACGAGTTGGCAGCACCCTAGTCAAAGCCCGCCCAA
*
1292584 GTTAGCGACACCTGAGTAA
131 GCTAGCGACACCTGAGTAA
* * * * *
1292603 AAGCCCACACAAGCTGGTGGCACCTAAGTTCGAGTCGAGCCCAAATTAGTTGGCACCTATCTAAG
1 AAGCCCACACAAGCTGGCGACACCTAAGTTCGAGCCAAGCCCAAATTAGTTGGCACCTATCTAAA
* * *
1292668 GAGGTCAAGCCTTAGAATGTCAAAGCCCACACGAGTTGGCAGCACCCTAGTTAAAGCCCGCTCAA
66 GAGATCAAGCCTTAGAATGTCAAAGCCCACACGAGTTGGCAGCACCCTAGTCAAAGCCCGCCCAA
*
1292733 GCTGGCGACACC
131 GCTAGCGACACC
1292745 CAAGTCTAAG
Statistics
Matches: 125, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
148 72 0.58
149 53 0.42
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.18
Consensus pattern (149 bp):
AAGCCCACACAAGCTGGCGACACCTAAGTTCGAGCCAAGCCCAAATTAGTTGGCACCTATCTAAA
GAGATCAAGCCTTAGAATGTCAAAGCCCACACGAGTTGGCAGCACCCTAGTCAAAGCCCGCCCAA
GCTAGCGACACCTGAGTAA
Found at i:1292978 original size:68 final size:68
Alignment explanation
Indices: 1292869--1293021 Score: 211
Period size: 68 Copynumber: 2.2 Consensus size: 68
1292859 TTAGAATGTT
* *
1292869 AAAGCCCACACAAGCTGGTGGCAGTTAAGTCTAAATCAAAGCCCGCATAAGCTGACGGCACCT-G
1 AAAGCCCACACAAGCTGGTGGCAGTTAAGTCTAAATCAAAGCACGCACAAGCTGACGGCA-CTGG
1292933 AGTC
65 AGTC
* * * * *
1292937 AAAGCCCACACAAGTTGGTGGCA-TCTGAGTCTGAATCAAAGCACGCACAAGTTGACGGTACTGG
1 AAAGCCCACACAAGCTGGTGGCAGT-TAAGTCTAAATCAAAGCACGCACAAGCTGACGGCACTGG
1293001 AGTC
65 AGTC
1293005 AAAGCCCACACAAGCTG
1 AAAGCCCACACAAGCTG
1293022 ATCGAGTCCA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
67 3 0.04
68 72 0.96
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (68 bp):
AAAGCCCACACAAGCTGGTGGCAGTTAAGTCTAAATCAAAGCACGCACAAGCTGACGGCACTGGA
GTC
Found at i:1293629 original size:20 final size:21
Alignment explanation
Indices: 1293587--1293636 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
1293577 TACAAACAGT
1293587 AAATGTATCGATACATAAGTG
1 AAATGTATCGATACATAAGTG
***
1293608 -AATGTATCGATACATGCTTG
1 AAATGTATCGATACATAAGTG
1293628 AAATGTATC
1 AAATGTATC
1293637 AATAATACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (21 bp):
AAATGTATCGATACATAAGTG
Found at i:1296476 original size:193 final size:194
Alignment explanation
Indices: 1296142--1296527 Score: 668
Period size: 193 Copynumber: 2.0 Consensus size: 194
1296132 ACCTCGCTTT
* *
1296142 TCTTCAAGATCCGATTCCTTCTTCAAAAGATTTTTTTTCAAAACAAAGATAATTACCTGTCAAAT
1 TCTTCAAGATCCAATTCCTTCTTCAAAAGATTTTTTTTCAAAACAAAGATAATTACCCGTCAAAT
* * *
1296207 CCAAACTAGTCTCCAAGTTGCCATATCGATTATTTATCAATAATCGATGACACTTACGAGATACA
66 CCAAACTAGTCTCCAAGTTGCCATATCGATTATTTATCAATAATCGAGGACAATTACAAGATACA
1296272 TTATCGGTTGTCCATTTTTTTGTTCATCATTTTCCTTGTGTTATATCACTACATTAGTCACATG
131 TTATCGGTTGTCCATTTTTTTGTTCATCATTTTCCTTGTGTTATATCACTACATTAGTCACATG
*
1296336 TCTTCAAGATCCAATTCCTTCTTCAAAAGA-TTTTTTTCAAAACAAAGATAATTACCCGTCGAAT
1 TCTTCAAGATCCAATTCCTTCTTCAAAAGATTTTTTTTCAAAACAAAGATAATTACCCGTCAAAT
* *
1296400 CCAAACTAGTCTCCAAGTTGTCATGTC-AGTTATTTATCAATAATCGAGGACAATTACAAGATAC
66 CCAAACTAGTCTCCAAGTTGCCATATCGA-TTATTTATCAATAATCGAGGACAATTACAAGATAC
*
1296464 ATTATGGGTTGTCCATTTTTTTGTTCATCATTTTCCTTGTGTTATATCACTACATTAGTCACAT
130 ATTATCGGTTGTCCATTTTTTTGTTCATCATTTTCCTTGTGTTATATCACTACATTAGTCACAT
1296528 ATCTCCTGTT
Statistics
Matches: 182, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
192 1 0.01
193 152 0.84
194 29 0.16
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.38
Consensus pattern (194 bp):
TCTTCAAGATCCAATTCCTTCTTCAAAAGATTTTTTTTCAAAACAAAGATAATTACCCGTCAAAT
CCAAACTAGTCTCCAAGTTGCCATATCGATTATTTATCAATAATCGAGGACAATTACAAGATACA
TTATCGGTTGTCCATTTTTTTGTTCATCATTTTCCTTGTGTTATATCACTACATTAGTCACATG
Found at i:1297193 original size:6 final size:6
Alignment explanation
Indices: 1297182--1297229 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
1297172 CAATCACTGT
* * *
1297182 TGTATA TGTATA TGTATA TGTATA TGTATA TGTGTA TGAATA TATATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1297230 AGGCACGAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (6 bp):
TGTATA
Found at i:1299672 original size:29 final size:27
Alignment explanation
Indices: 1299609--1299672 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
1299599 ACATTTACAT
*
1299609 TTATTTAATTAATCATTTATATAATTA
1 TTATTTAATAAATCATTTATATAATTA
* *
1299636 TTAGTTTAAGTAAATCATTTTTATATTTA
1 TTA-TTTAA-TAAATCATTTATATAATTA
1299665 TATATTTA
1 T-TATTTA
1299673 TTTATTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 3 0.10
28 5 0.16
29 21 0.68
30 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (27 bp):
TTATTTAATAAATCATTTATATAATTA
Found at i:1300140 original size:2 final size:2
Alignment explanation
Indices: 1300133--1300162 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1300123 TTTGCATTGC
1300133 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1300163 ATGAAAGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1300654 original size:21 final size:21
Alignment explanation
Indices: 1300603--1300654 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
1300593 TAAATTATGA
* *
1300603 AAATATAAAAATTTTTAAAAT
1 AAATATAAATATGTTTAAAAT
* * *
1300624 AAATTTAAATATGTTTATATT
1 AAATATAAATATGTTTAAAAT
1300645 AAATATAAAT
1 AAATATAAAT
1300655 TTATATTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
AAATATAAATATGTTTAAAAT
Found at i:1300671 original size:25 final size:27
Alignment explanation
Indices: 1300616--1300698 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 27
1300606 TATAAAAATT
*
1300616 TTTAAA-ATAAATTTAAATATGTTTATA
1 TTTAAATATAAATTT-AATATGTTAATA
1300643 -TTAAATATAAATTT-ATAT-TTAATA
1 TTTAAATATAAATTTAATATGTTAATA
* * *
1300667 TTTAATTTTAAATTTTTATAATG-TAATA
1 TTTAAATATAAA-TTTAAT-ATGTTAATA
1300695 TTTA
1 TTTA
1300699 GTCAATTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
24 5 0.11
25 13 0.28
26 8 0.17
27 10 0.21
28 11 0.23
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TTTAAATATAAATTTAATATGTTAATA
Found at i:1301233 original size:27 final size:26
Alignment explanation
Indices: 1301203--1301257 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
1301193 TCATTCATTA
1301203 TTTTAAAAAAATTTAAAAATTAAAATT
1 TTTTAAAAAAATTT-AAAATTAAAATT
* ** *
1301230 TTTTTATTAAATTTAAAATTTAAATT
1 TTTTAAAAAAATTTAAAATTAAAATT
1301256 TT
1 TT
1301258 ATCTTCTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TTTTAAAAAAATTTAAAATTAAAATT
Found at i:1303148 original size:22 final size:22
Alignment explanation
Indices: 1303123--1303181 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
1303113 TACTTATAAA
1303123 TTATAATAAATAAAAAAATTAT
1 TTATAATAAATAAAAAAATTAT
* *
1303145 TTATAAT-ATTTAAAAAATTAT
1 TTATAATAAATAAAAAAATTAT
1303166 TTA-AATATTAATAAAA
1 TTATAATA--AATAAAA
1303182 TTTTGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.10
21 15 0.50
22 7 0.23
23 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TTATAATAAATAAAAAAATTAT
Found at i:1303172 original size:20 final size:20
Alignment explanation
Indices: 1303135--1303183 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 20
1303125 ATAATAAATA
1303135 AAAAAATTATTTATAATATTT
1 AAAAAATTATTTATAATA-TT
1303156 AAAAAATTATTTA-AATATT
1 AAAAAATTATTTATAATATT
1303175 AATAAAATT
1 AA-AAAATT
1303184 TTGATGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.15
20 10 0.37
21 13 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAAAATTATTTATAATATT
Found at i:1303368 original size:15 final size:15
Alignment explanation
Indices: 1303350--1303399 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
1303340 GTTATAATTT
*
1303350 TTAAAACATAAAATA
1 TTAAAATATAAAATA
*
1303365 TTAAAATATTAAAT-
1 TTAAAATATAAAATA
1303379 TTAATAATATAAAA-A
1 TTAA-AATATAAAATA
1303394 TTAAAA
1 TTAAAA
1303400 ATTTGTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 6 0.20
15 24 0.80
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAAATATAAAATA
Found at i:1307245 original size:32 final size:32
Alignment explanation
Indices: 1307208--1307271 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
1307198 CATGAGAAAG
1307208 TATAAAATGGTCATCAATCATTTACTTTTATA
1 TATAAAATGGTCATCAATCATTTACTTTTATA
1307240 TATAAAATGGTCATCAATCATTTACTTTTATA
1 TATAAAATGGTCATCAATCATTTACTTTTATA
1307272 GGAAAAAGAT
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:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (32 bp):
TATAAAATGGTCATCAATCATTTACTTTTATA
Found at i:1311257 original size:16 final size:17
Alignment explanation
Indices: 1311236--1311268 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1311226 TAAATAATAA
*
1311236 AAAATTTTATTT-TTTT
1 AAAATTTGATTTATTTT
1311252 AAAATTTGATTTATTTT
1 AAAATTTGATTTATTTT
1311269 GTTAAGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
AAAATTTGATTTATTTT
Found at i:1311300 original size:27 final size:26
Alignment explanation
Indices: 1311249--1311300 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
1311239 ATTTTATTTT
*
1311249 TTTAAAATTTGATTTATTTTGTTAAG
1 TTTAAAATTTGATTTATTATGTTAAG
*
1311275 TTTAAATATTTTATATTATTAT-TTAA
1 TTTAAA-ATTTGAT-TTATTATGTTAA
1311301 AAATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 6 0.27
27 10 0.45
28 6 0.27
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (26 bp):
TTTAAAATTTGATTTATTATGTTAAG
Found at i:1311301 original size:21 final size:21
Alignment explanation
Indices: 1311275--1311357 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
1311265 TTTTGTTAAG
1311275 TTTAAATATTTTATATTATTA
1 TTTAAATATTTTATATTATTA
* * *
1311296 TTTAAAAATATTAAATTATT-
1 TTTAAATATTTTATATTATTA
** *
1311316 TAAAAATTATTTTATATTAATA
1 TTTAAA-TATTTTATATTATTA
* *
1311338 TTTATATATTTT-TATAATTA
1 TTTAAATATTTTATATTATTA
1311358 AATTAAAATA
Statistics
Matches: 46, Mismatches: 14, Indels: 5
0.71 0.22 0.08
Matches are distributed among these distances:
20 10 0.22
21 33 0.72
22 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAAATATTTTATATTATTA
Found at i:1311308 original size:16 final size:16
Alignment explanation
Indices: 1311287--1311335 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
1311277 TAAATATTTT
1311287 ATATTATTATTTAAAA
1 ATATTATTATTTAAAA
1311303 ATATTAAATTATTTAAAA
1 ATATT--ATTATTTAAAA
1311321 ATTATT-TTATATTAA
1 A-TATTATTAT-TTAA
1311336 TATTTATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 9 0.31
17 4 0.14
18 12 0.41
19 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATTATTATTTAAAA
Found at i:1311780 original size:16 final size:16
Alignment explanation
Indices: 1311755--1311840 Score: 84
Period size: 16 Copynumber: 5.3 Consensus size: 16
1311745 GTTTAGATAA
* *
1311755 ATTTTGAATTTGAATT
1 ATTTTAAATTTAAATT
1311771 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAA-TT
* *
1311788 ATTTTAAGTTTGAA-T
1 ATTTTAAATTTAAATT
1311803 ATTTTTAAATTTAAATT
1 A-TTTTAAATTTAAATT
* * *
1311820 TTTTTAAATTCAAATA
1 ATTTTAAATTTAAATT
1311836 ATTTT
1 ATTTT
1311841 TAGCTTGTGC
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
15 2 0.04
16 40 0.70
17 15 0.26
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (16 bp):
ATTTTAAATTTAAATT
Found at i:1311800 original size:33 final size:32
Alignment explanation
Indices: 1311755--1311826 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 32
1311745 GTTTAGATAA
1311755 ATTTTGAATTTGAAT-TATTTTAAATTTAAATTT
1 ATTTT-AATTTGAATAT-TTTTAAATTTAAATTT
1311788 ATTTTAAGTTTGAATATTTTTAAATTTAAATTT
1 ATTTTAA-TTTGAATATTTTTAAATTTAAATTT
1311821 -TTTTAA
1 ATTTTAA
1311827 ATTCAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
32 8 0.22
33 28 0.76
34 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (32 bp):
ATTTTAATTTGAATATTTTTAAATTTAAATTT
Found at i:1311840 original size:33 final size:33
Alignment explanation
Indices: 1311772--1311842 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
1311762 ATTTGAATTA
* **
1311772 TTTTAAATTTAAATTTATTTTAAGTTTGAATAT
1 TTTTAAATTTAAATTTATTTTAAATTCAAATAT
1311805 TTTTAAATTTAAATTT-TTTTAAATTCAAATAAT
1 TTTTAAATTTAAATTTATTTTAAATTCAAAT-AT
1311838 TTTTA
1 TTTTA
1311843 GCTTGTGCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.32
33 23 0.68
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (33 bp):
TTTTAAATTTAAATTTATTTTAAATTCAAATAT
Found at i:1313496 original size:21 final size:21
Alignment explanation
Indices: 1313470--1313511 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1313460 TAAATCAATT
*
1313470 CGAAACGGATCGAATTTAATC
1 CGAAACAGATCGAATTTAATC
1313491 CGAAACAGATCGAATTTAATC
1 CGAAACAGATCGAATTTAATC
1313512 GTAGATCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (21 bp):
CGAAACAGATCGAATTTAATC
Found at i:1316949 original size:21 final size:21
Alignment explanation
Indices: 1316889--1316951 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
1316879 AATAAATGCA
*
1316889 AAAATAAATAATAATTTATATT
1 AAAATATA-AATAATTTATATT
* * *
1316911 ATAATTTAAAATAA-TTATTTT
1 AAAATAT-AAATAATTTATATT
1316932 AAAATATAAATAATTTATAT
1 AAAATATAAATAATTTATAT
1316952 ACTATTTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 9 0.28
23 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAATATAAATAATTTATATT
Found at i:1317072 original size:21 final size:20
Alignment explanation
Indices: 1317043--1317097 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
1317033 AACCAAAACA
1317043 TAAA-AAATTCTATTATAAT-T
1 TAAATAAATTCTA-TA-AATAT
*
1317063 TAAATAAATTTTATAAATAT
1 TAAATAAATTCTATAAATAT
1317083 TAAAT-AATT-TATAAA
1 TAAATAAATTCTATAAA
1317098 AATATAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 6 0.19
19 7 0.22
20 12 0.38
21 7 0.22
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAATAAATTCTATAAATAT
Found at i:1317085 original size:20 final size:21
Alignment explanation
Indices: 1317062--1317108 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
1317052 CTATTATAAT
*
1317062 TTAAATAAATTT-TATAAATA
1 TTAAATAAATTTATAAAAATA
1317082 TTAAAT-AATTTATAAAAATA
1 TTAAATAAATTTATAAAAATA
*
1317102 TAAAATA
1 TTAAATA
1317109 TTTATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAATAAATTTATAAAAATA
Found at i:1317956 original size:19 final size:20
Alignment explanation
Indices: 1317916--1317953 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1317906 TGTAAATAAA
* *
1317916 TATTTTATATTTATAAAAAT
1 TATTTAATATTCATAAAAAT
1317936 TATTTAATATTCATAAAA
1 TATTTAATATTCATAAAA
1317954 TTAATATAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTAATATTCATAAAAAT
Found at i:1318937 original size:20 final size:20
Alignment explanation
Indices: 1318912--1319003 Score: 89
Period size: 21 Copynumber: 4.5 Consensus size: 20
1318902 CACTTATTTG
1318912 TATCGATACACA-TGCAGATA
1 TATCGATACACATTGCA-ATA
*
1318932 TATCGATACA-AGTTGCAATG
1 TATCGATACACA-TTGCAATA
*
1318952 TAATCGATACACATTGCAATG
1 T-ATCGATACACATTGCAATA
* *
1318973 TATCGATACACTATGGAAATA
1 TATCGATACAC-ATTGCAATA
*
1318994 TATTGATACA
1 TATCGATACA
1319004 TGTGATTGGC
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
19 1 0.02
20 23 0.37
21 37 0.60
22 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (20 bp):
TATCGATACACATTGCAATA
Found at i:1318957 original size:21 final size:20
Alignment explanation
Indices: 1318910--1318983 Score: 98
Period size: 20 Copynumber: 3.6 Consensus size: 20
1318900 AACACTTATT
1318910 TGTATCGATACACA-TGCAGA
1 TGTATCGATACACATTGCA-A
*
1318930 TATATCGATACA-AGTTGCAA
1 TGTATCGATACACA-TTGCAA
1318950 TGTAATCGATACACATTGCAA
1 TGT-ATCGATACACATTGCAA
1318971 TGTATCGATACAC
1 TGTATCGATACAC
1318984 TATGGAAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.02
20 24 0.50
21 22 0.46
22 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (20 bp):
TGTATCGATACACATTGCAA
Found at i:1322029 original size:33 final size:33
Alignment explanation
Indices: 1321964--1322032 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1321954 GTACCACTGT
** *
1321964 TTGTATCGATACATGGTATATTATATCGATACA
1 TTGTATCGATACATAATATATTATATCAATACA
*
1321997 TTGTATCGATACATAATGA-ATTGTATCAATACA
1 TTGTATCGATACATAAT-ATATTATATCAATACA
1322030 TTG
1 TTG
1322033 CTTCTAACTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATAATATATTATATCAATACA
Found at i:1323266 original size:13 final size:13
Alignment explanation
Indices: 1323248--1323272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1323238 TTTTACTATG
1323248 TATCGATACAATA
1 TATCGATACAATA
1323261 TATCGATACAAT
1 TATCGATACAAT
1323273 GTCTCATGTA
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:1323362 original size:19 final size:19
Alignment explanation
Indices: 1323320--1323371 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
1323310 TTGCCAGTTT
***
1323320 CATGTATCGATACAATTTT
1 CATGTATCGATACAATGAA
*
1323339 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1323358 CATGTATCGATACA
1 CATGTATCGATACA
1323372 TTGTATCGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1323378 original size:13 final size:13
Alignment explanation
Indices: 1323360--1323384 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1323350 ACAATGAACA
1323360 TGTATCGATACAT
1 TGTATCGATACAT
1323373 TGTATCGATACA
1 TGTATCGATACA
1323385 AAGCAATATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1323382 original size:32 final size:33
Alignment explanation
Indices: 1323341--1323403 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
1323331 ACAATTTTTA
*
1323341 TGTATCGATACAATG-AACATGTATCGATACAT
1 TGTATCGATACAAAGCAACATGTATCGATACAT
*
1323373 TGTATCGATACAAAGCAATATGTATCGATAC
1 TGTATCGATACAAAGCAACATGTATCGATAC
1323404 TTCTAGGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (33 bp):
TGTATCGATACAAAGCAACATGTATCGATACAT
Found at i:1324318 original size:16 final size:17
Alignment explanation
Indices: 1324297--1324333 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
1324287 TTCATTAAGA
*
1324297 AAAGTTAAGAA-CAATC
1 AAAGTTAAAAAGCAATC
1324313 AAAGTTAAAAAGCAATC
1 AAAGTTAAAAAGCAATC
1324330 AAAG
1 AAAG
1324334 AAGTAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.59, C:0.11, G:0.14, T:0.16
Consensus pattern (17 bp):
AAAGTTAAAAAGCAATC
Found at i:1329115 original size:20 final size:20
Alignment explanation
Indices: 1329090--1329141 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1329080 TACAAGCCAA
1329090 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATTTTTTG
1329110 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATTTTTTG
1329130 TGTATCGATACA
1 TGTATCGATACA
1329142 TTGTATCGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (20 bp):
TGTATCGATACAATTTTTTG
Found at i:1329148 original size:13 final size:13
Alignment explanation
Indices: 1329130--1329155 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1329120 CAATTTTTTG
1329130 TGTATCGATACAT
1 TGTATCGATACAT
1329143 TGTATCGATACAT
1 TGTATCGATACAT
1329156 ACTTGGTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1329170 original size:32 final size:33
Alignment explanation
Indices: 1329110--1329173 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1329100 CAATTTTTTG
** *
1329110 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1329143 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1329174 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1329180 original size:19 final size:18
Alignment explanation
Indices: 1329090--1329180 Score: 66
Period size: 20 Copynumber: 5.0 Consensus size: 18
1329080 TACAAGCCAA
*
1329090 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
*
1329110 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
1329130 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
1329143 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1329162 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1329181 CTACTGCCAA
Statistics
Matches: 63, Mismatches: 1, Indels: 15
0.80 0.01 0.19
Matches are distributed among these distances:
13 11 0.17
15 2 0.03
17 1 0.02
18 1 0.02
19 17 0.27
20 31 0.49
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1329641 original size:16 final size:16
Alignment explanation
Indices: 1329620--1329655 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
1329610 ATTGTAGCAA
1329620 TTTACGCATTCTCCCC
1 TTTACGCATTCTCCCC
1329636 TTTACGCATTCTCCCC
1 TTTACGCATTCTCCCC
1329652 TTTA
1 TTTA
1329656 TCTCCCCCGT
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:0.14, C:0.39, G:0.06, T:0.42
Consensus pattern (16 bp):
TTTACGCATTCTCCCC
Found at i:1329697 original size:21 final size:21
Alignment explanation
Indices: 1329656--1329699 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1329646 CTCCCCTTTA
* *
1329656 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1329677 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1329698 TC
1 TC
1329700 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1331489 original size:13 final size:13
Alignment explanation
Indices: 1331471--1331496 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1331461 ATAATCTCCC
1331471 TGTATCGATACAA
1 TGTATCGATACAA
1331484 TGTATCGATACAA
1 TGTATCGATACAA
1331497 AGAAAAATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1335437 original size:21 final size:21
Alignment explanation
Indices: 1335408--1335452 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1335398 AAGTTTTTAT
*
1335408 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1335428 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1335450 TTT
1 TTT
1335453 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1337688 original size:13 final size:13
Alignment explanation
Indices: 1337670--1337695 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1337660 CAATTTTTTG
1337670 TGTATCGATACAT
1 TGTATCGATACAT
1337683 TGTATCGATACAT
1 TGTATCGATACAT
1337696 ACTTGGTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1337710 original size:32 final size:33
Alignment explanation
Indices: 1337650--1337713 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1337640 TACAAGCCAA
** *
1337650 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1337683 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1337714 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1341125 original size:20 final size:19
Alignment explanation
Indices: 1341100--1341166 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
1341090 GCATATATTA
1341100 ATACATTGAATAATGTATCG
1 ATACATT-AATAATGTATCG
*
1341120 ATACATCTAGGTAATGTATCG
1 ATACAT-TA-ATAATGTATCG
* * *
1341141 ATAAATTAAATCATGTATTG
1 ATACATT-AATAATGTATCG
1341161 ATACAT
1 ATACAT
1341167 CTTGGTAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 21 0.55
21 17 0.45
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.36
Consensus pattern (19 bp):
ATACATTAATAATGTATCG
Found at i:1341136 original size:21 final size:21
Alignment explanation
Indices: 1341110--1341174 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
1341100 ATACATTGAA
1341110 TAATGTATCGATACATCTAGG
1 TAATGTATCGATACATCTAGG
* **
1341131 TAATGTATCGATAAAT-TAAA
1 TAATGTATCGATACATCTAGG
* * *
1341151 TCATGTATTGATACATCTTGG
1 TAATGTATCGATACATCTAGG
1341172 TAA
1 TAA
1341175 ATACCCAGAT
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (21 bp):
TAATGTATCGATACATCTAGG
Found at i:1342030 original size:52 final size:52
Alignment explanation
Indices: 1341951--1342410 Score: 199
Period size: 52 Copynumber: 8.8 Consensus size: 52
1341941 GTGGGAAATG
* * *
1341951 TGCCAATATGCTGATTCAAGGCAAGCGATATTGGGCTTAAAGATACA-AAGAA
1 TGCCAATATGCTGATTCAAGACCAGCGACATTGGGCTTAAAGATA-AGAAGAA
* * * * *
1342003 TGTCAATGTGCTGATTCACA-ACCAGCGACATTAGACTTGAAGATAAGAAGAA
1 TGCCAATATGCTGATTCA-AGACCAGCGACATTGGGCTTAAAGATAAGAAGAA
* * * *
1342055 TGCCAATATGTTGATTCAAGGCCAGCGACATTGGGCTGAGGAATG-TTA-AAG-A
1 TGCCAATATGCTGATTCAAGACCAGCGACATTGGGCTTA--AA-GATAAGAAGAA
* * * * * ** * *
1342107 TGGCAATATGCTGATTCAAG-GCAGTGATATCGAACTTAAAGAT--GATG-G
1 TGCCAATATGCTGATTCAAGACCAGCGACATTGGGCTTAAAGATAAGAAGAA
* * * * * *
1342155 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGGTTGAGCAGGATGATGAAA
1 TGCCAATATGCTGATTCAAGACCAGCGACATTGGGCTTAAAGAT-A--A-GA--A-G-AA
* * * *
1342215 GTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGCA-AAGAA
1 -TGCCAATATGCTGATTCAAGACCAGCGACATTGGGCTTAAAGAT-AAGAAGAA
* * * * * * * * *
1342268 TGTCAATGTGCTGATTCACTG-CCAGCTACGTTAGACTTGAAGATGAGAAGAA
1 TGCCAATATGCTGATTCA-AGACCAGCGACATTGGGCTTAAAGATAAGAAGAA
* * * * * * *
1342320 TGCCAATGTACTGATTCAAGGCCAGCGATATTAGACTT-GAGA-AAGAAGAA
1 TGCCAATATGCTGATTCAAGACCAGCGACATTGGGCTTAAAGATAAGAAGAA
* * * **
1342370 TGTGCTAATGTGCTGATTCAAGGCCATTGACATTGGGCTTA
1 --TGCCAATATGCTGATTCAAGACCAGCGACATTGGGCTTA
1342411 GAAGGAGATG
Statistics
Matches: 307, Mismatches: 74, Indels: 53
0.71 0.17 0.12
Matches are distributed among these distances:
48 20 0.07
49 19 0.06
50 7 0.02
51 18 0.06
52 186 0.61
53 7 0.02
54 5 0.02
55 4 0.01
57 1 0.00
58 1 0.00
59 1 0.00
61 38 0.12
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (52 bp):
TGCCAATATGCTGATTCAAGACCAGCGACATTGGGCTTAAAGATAAGAAGAA
Found at i:1342467 original size:32 final size:32
Alignment explanation
Indices: 1342431--1342536 Score: 133
Period size: 32 Copynumber: 3.3 Consensus size: 32
1342421 CCACTGACTC
1342431 GTGTGGGCTTTTAAAAAGGTTGCCACCAACTT
1 GTGTGGGCTTTTAAAAAGGTTGCCACCAACTT
** ** * *
1342463 GTGTGGGC-TTTGGAGGGGTTACCACCGACTT
1 GTGTGGGCTTTTAAAAAGGTTGCCACCAACTT
* *
1342494 ATGTGGGCTTTGAAAAAGGTTGCCACCAACTT
1 GTGTGGGCTTTTAAAAAGGTTGCCACCAACTT
1342526 GTGTGGGCTTT
1 GTGTGGGCTTT
1342537 AGAGAAGGTT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
31 24 0.41
32 34 0.59
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (32 bp):
GTGTGGGCTTTTAAAAAGGTTGCCACCAACTT
Found at i:1342761 original size:28 final size:28
Alignment explanation
Indices: 1342728--1342789 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
1342718 GTGACACTGG
*
1342728 TTGTGGACTTCAAAAAGATGTCACTAAC
1 TTGTGGACTTCAAAAAGATGCCACTAAC
* *
1342756 TTGTGGACTTCAAAGAGGTGCCACTAAC
1 TTGTGGACTTCAAAAAGATGCCACTAAC
*
1342784 TAGTGG
1 TTGTGG
1342790 GCTTTGAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (28 bp):
TTGTGGACTTCAAAAAGATGCCACTAAC
Found at i:1342884 original size:13 final size:14
Alignment explanation
Indices: 1342853--1342902 Score: 82
Period size: 14 Copynumber: 3.6 Consensus size: 14
1342843 ACGTTATCGA
*
1342853 AAAAAGTTCTTGAC
1 AAAAATTTCTTGAC
1342867 AAAAATTTCTTGAC
1 AAAAATTTCTTGAC
1342881 AAAAATTTCTTGAC
1 AAAAATTTCTTGAC
*
1342895 AACAATTT
1 AAAAATTT
1342903 TGTTGACAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (14 bp):
AAAAATTTCTTGAC
Found at i:1342885 original size:15 final size:15
Alignment explanation
Indices: 1342852--1342911 Score: 70
Period size: 14 Copynumber: 4.1 Consensus size: 15
1342842 CACGTTATCG
*
1342852 AAAAAAGTTCTTGAC
1 AAAAAATTTCTTGAC
1342867 -AAAAATTTCTTGAC
1 AAAAAATTTCTTGAC
1342881 -AAAAATTTCTTGAC
1 AAAAAATTTCTTGAC
* * *
1342895 AACAATTTTGTTGAC
1 AAAAAATTTCTTGAC
1342910 AA
1 AA
1342912 TGGCAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 27 0.68
15 13 0.32
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (15 bp):
AAAAAATTTCTTGAC
Found at i:1342890 original size:28 final size:29
Alignment explanation
Indices: 1342853--1342911 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
1342843 ACGTTATCGA
1342853 AAAAAGTTCTTGACAA-AAATTTCTTGAC
1 AAAAAGTTCTTGACAACAAATTTCTTGAC
* * *
1342881 AAAAATTTCTTGACAACAATTTTGTTGAC
1 AAAAAGTTCTTGACAACAAATTTCTTGAC
1342910 AA
1 AA
1342912 TGGCAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (29 bp):
AAAAAGTTCTTGACAACAAATTTCTTGAC
Found at i:1344122 original size:7 final size:7
Alignment explanation
Indices: 1344110--1344142 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
1344100 TTCTTCCCCC
1344110 TTTTTTG
1 TTTTTTG
1344117 TTTTTT-
1 TTTTTTG
*
1344123 TTGTTTG
1 TTTTTTG
1344130 TTTTTTG
1 TTTTTTG
1344137 TTTTTT
1 TTTTTT
1344143 TTGCAGAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:1344124 original size:9 final size:9
Alignment explanation
Indices: 1344110--1344145 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
1344100 TTCTTCCCCC
1344110 TTTTTTGTT
1 TTTTTTGTT
1344119 TTTTTTGTTT
1 TTTTTTG-TT
1344129 GTTTTTTGTT
1 -TTTTTTGTT
1344139 TTTTTTG
1 TTTTTTG
1344146 CAGAGGACGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 14 0.56
10 4 0.16
11 7 0.28
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:1346061 original size:21 final size:20
Alignment explanation
Indices: 1346027--1346067 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
1346017 TGGGATGCTA
*
1346027 AACATGTTAAAAATGCATGG
1 AACATGTAAAAAATGCATGG
1346047 AACATAGTAAAAAATGCATGG
1 AACAT-GTAAAAAATGCATGG
1346068 TCAAAGGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.22
Consensus pattern (20 bp):
AACATGTAAAAAATGCATGG
Found at i:1347044 original size:71 final size:71
Alignment explanation
Indices: 1346928--1347060 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 71
1346918 TTTTAACTAG
* *
1346928 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGCAAAAAGACAGAATGTATCGATAAAT
1 ATGTATCGATACATTCAAAAATGTATCGATACATCTAGGCAAAAAGACAGAATGTATCGATAAAT
1346993 TGAAGA
66 TGAAGA
* * *
1346999 ATGTATCGATACATTCATACATGTATCGATACCATCTAGG-TAAAAGACAGAATGTATCGATA
1 ATGTATCGATACATTCAAAAATGTATCGATA-CATCTAGGCAAAAAGACAGAATGTATCGATA
1347061 CATCTAGGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 49 0.88
72 7 0.12
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (71 bp):
ATGTATCGATACATTCAAAAATGTATCGATACATCTAGGCAAAAAGACAGAATGTATCGATAAAT
TGAAGA
Found at i:1348023 original size:13 final size:13
Alignment explanation
Indices: 1348005--1348030 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1347995 CAATTTTTTG
1348005 TGTATCGATACAT
1 TGTATCGATACAT
1348018 TGTATCGATACAT
1 TGTATCGATACAT
1348031 ACTTTGTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1348042 original size:32 final size:33
Alignment explanation
Indices: 1347985--1348048 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1347975 TACAAGCCAA
**
1347985 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1348018 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1348049 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1350142 original size:21 final size:20
Alignment explanation
Indices: 1350118--1350160 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1350108 AACTAGTGTG
*
1350118 GGGACTACCCGGTTGTGACCT
1 GGGACT-CCCGGTCGTGACCT
* *
1350139 GGGAGTGCCGGTCGTGACCT
1 GGGACTCCCGGTCGTGACCT
1350159 GG
1 GG
1350161 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.12, C:0.26, G:0.42, T:0.21
Consensus pattern (20 bp):
GGGACTCCCGGTCGTGACCT
Found at i:1350610 original size:13 final size:13
Alignment explanation
Indices: 1350592--1350630 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1350582 ACAATCCCCC
*
1350592 TGTATCGATACAG
1 TGTATCGATACAA
1350605 TGTATCGATACAA
1 TGTATCGATACAA
1350618 TGTATCGATACAA
1 TGTATCGATACAA
1350631 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1354552 original size:21 final size:21
Alignment explanation
Indices: 1354522--1354566 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1354512 AAGTTTTTAC
*
1354522 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1354542 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1354564 TTT
1 TTT
1354567 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1356804 original size:13 final size:13
Alignment explanation
Indices: 1356786--1356811 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1356776 CAATTTTTTG
1356786 TGTATCGATACAT
1 TGTATCGATACAT
1356799 TGTATCGATACAT
1 TGTATCGATACAT
1356812 ACTTTGTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1356823 original size:32 final size:33
Alignment explanation
Indices: 1356766--1356829 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1356756 TACAAGCCAA
**
1356766 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1356799 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1356830 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1361073 original size:50 final size:50
Alignment explanation
Indices: 1361012--1361196 Score: 169
Period size: 50 Copynumber: 3.9 Consensus size: 50
1361002 TTTTAACTAG
*
1361012 ATGTATCGATACATTGAAAATGTACCGATACATCTGGGCAAAAAGATAGA
1 ATGTATCGATACATTGAAAATGTATCGATACATCTGGGCAAAAAGATAGA
* * *
1361062 ATGTATTGATACATTGAAGAATGTATCGATAC-T-T--TC------ATA-C
1 ATGTATCGATACATTGAA-AATGTATCGATACATCTGGGCAAAAAGATAGA
* * *
1361102 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGG-TAAAAGACAGA
1 ATGTATCGATACATT-GAAAATGTATCGATACATCTGGGCAAAAAGATAGA
* *
1361152 ATGTATTGATACATTGAAAAATGTATCGATACATCTAGGTCAAAA
1 ATGTATCGATACATTG-AAAATGTATCGATACATCT-GGGCAAAA
1361197 TGTGACTTTT
Statistics
Matches: 106, Mismatches: 13, Indels: 30
0.71 0.09 0.20
Matches are distributed among these distances:
40 27 0.25
41 6 0.06
42 1 0.01
47 1 0.01
49 3 0.03
50 51 0.48
51 14 0.13
52 3 0.03
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAATGTATCGATACATCTGGGCAAAAAGATAGA
Found at i:1361084 original size:20 final size:20
Alignment explanation
Indices: 1361059--1361135 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
1361049 GCAAAAAGAT
* *
1361059 AGAATGTATTGATACATTGA
1 AGAATGTATCGATACATTAA
* *
1361079 AGAATGTATCGATACTTTCAT
1 AGAATGTATCGATACATT-AA
*
1361100 A-CATGTATCGATACATTAA
1 AGAATGTATCGATACATTAA
*
1361119 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
1361136 CTGGGTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 44 0.94
21 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:1361165 original size:90 final size:90
Alignment explanation
Indices: 1361012--1361183 Score: 283
Period size: 90 Copynumber: 1.9 Consensus size: 90
1361002 TTTTAACTAG
* *
1361012 ATGTATCGATACATTGAAAATGTACCGATACATCTGGGCAAAAAGATAGAATGTATTGATACATT
1 ATGTATCGATACATTAAAAATGTACCGATACATCTGGGCAAAAAGACAGAATGTATTGATACATT
*
1361077 GAAGAATGTATCGATACTTTCATAC
66 GAAAAATGTATCGATACTTTCATAC
* *
1361102 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGG-TAAAAGACAGAATGTATTGATACAT
1 ATGTATCGATACATT-AAAAATGTACCGATACATCTGGGCAAAAAGACAGAATGTATTGATACAT
1361166 TGAAAAATGTATCGATAC
65 TGAAAAATGTATCGATAC
1361184 ATCTAGGTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
90 55 0.72
91 21 0.28
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (90 bp):
ATGTATCGATACATTAAAAATGTACCGATACATCTGGGCAAAAAGACAGAATGTATTGATACATT
GAAAAATGTATCGATACTTTCATAC
Found at i:1362277 original size:28 final size:28
Alignment explanation
Indices: 1362195--1362480 Score: 281
Period size: 28 Copynumber: 10.1 Consensus size: 28
1362185 TAGGCTTAAA
* *
1362195 AAAGGTTGCCACTGACTTATGTGGACTTTG
1 AAAGGGTGCCACTGAC-T-TGTGGGCTTTG
* *
1362225 AAAAGGGGTGCCATTGACCTGTGGGCTTTG
1 -AAA-GGGTGCCACTGACTTGTGGGCTTTG
* * * **
1362255 GAAGGGTGCCACCGACTTATGGGCTTAA
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
1362283 AAAGGGTGCCACTTG-CTTGTGGGCTTTG
1 AAAGGGTGCCAC-TGACTTGTGGGCTTTG
* * **
1362311 GAAGGGTGCCA-TCGATTTGTGGGCTTAA
1 AAAGGGTGCCACT-GACTTGTGGGCTTTG
*
1362339 AAAGGGTGCCACTTG-CTTGTAGGCTTTG
1 AAAGGGTGCCAC-TGACTTGTGGGCTTTG
* * * *
1362367 AAAAGATGCCTCTGACTTGTGGGTTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
1362395 AAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
1362423 AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
*
1362451 AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
1362479 AA
1 AA
1362481 GAGATGAACG
Statistics
Matches: 213, Mismatches: 35, Indels: 17
0.80 0.13 0.06
Matches are distributed among these distances:
26 1 0.00
27 3 0.01
28 180 0.85
29 4 0.02
30 11 0.05
31 3 0.01
32 11 0.05
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.29
Consensus pattern (28 bp):
AAAGGGTGCCACTGACTTGTGGGCTTTG
Found at i:1365053 original size:80 final size:79
Alignment explanation
Indices: 1364941--1365138 Score: 200
Period size: 80 Copynumber: 2.5 Consensus size: 79
1364931 ATAACGGGGC
* * * * * ** * *
1364941 TGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCTCCGGTTGTGAGAAATCGATGA-TTAGA
1 TGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAG-
**
1365005 AAAAAAAAATTGGGAT
64 AAAAAAAAACCGGGAT
* **
1365021 TGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGG
1 TGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAA
* * *
1365086 AATAAAGCCGGGGT
66 AAAAAAACCGGGAT
* *
1365100 TGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCC
1 TGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC
1365139 TGATGAAATA
Statistics
Matches: 98, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
79 47 0.48
80 51 0.52
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (79 bp):
TGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAA
AAAAAAACCGGGAT
Found at i:1365150 original size:28 final size:27
Alignment explanation
Indices: 1365094--1365165 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
1365084 GGAATAAAGC
*
1365094 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTAT-CCCTCGGAAATAA
1365122 CGGGGTTGGAGTATCCCT-GATGAAATAA
1 CGGGGTTGGAGTATCCCTCG--GAAATAA
**
1365150 CAAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1365166 TCGACTGTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 4 0.10
28 34 0.87
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCTCGGAAATAA
Found at i:1365248 original size:54 final size:52
Alignment explanation
Indices: 1365176--1365328 Score: 209
Period size: 54 Copynumber: 2.9 Consensus size: 52
1365166 TCGACTGTGA
*
1365176 AAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
1 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA-G
* *
1365229 AAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATAG
1 AAAATTGGTG-TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG
* * * * *
1365282 AAAATTAGTG-TCTTGAAAATAAAATCGGAGTTGAAATATCCCCGATT
1 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATT
1365329 GTGGAGAATT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 32 0.36
53 19 0.21
54 39 0.43
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (52 bp):
AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG
Found at i:1365322 original size:51 final size:53
Alignment explanation
Indices: 1365193--1365328 Score: 179
Period size: 51 Copynumber: 2.6 Consensus size: 53
1365183 GTATTTTTGG
* * * *
1365193 AAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTTTGG
1 AAATAAAATCGGAGTTGAAGTATCCCCGATTAAAGGAAAATTAGTG-TTCTTGA
*
1365247 AAATAAAATCGGAGTT-AGAGTATCCCCGATTATA-GAAAATTAGTG-TCTTGA
1 AAATAAAATCGGAGTTGA-AGTATCCCCGATTAAAGGAAAATTAGTGTTCTTGA
*
1365298 AAATAAAATCGGAGTTGAAATATCCCCGATT
1 AAATAAAATCGGAGTTGAAGTATCCCCGATT
1365329 GTGGAGAATT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
51 32 0.43
52 1 0.01
53 10 0.14
54 31 0.42
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (53 bp):
AAATAAAATCGGAGTTGAAGTATCCCCGATTAAAGGAAAATTAGTGTTCTTGA
Found at i:1367706 original size:13 final size:13
Alignment explanation
Indices: 1367688--1367713 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1367678 ATAAAGATCC
1367688 ATGTATCGATACA
1 ATGTATCGATACA
1367701 ATGTATCGATACA
1 ATGTATCGATACA
1367714 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1381455 original size:71 final size:71
Alignment explanation
Indices: 1381364--1381521 Score: 226
Period size: 71 Copynumber: 2.2 Consensus size: 71
1381354 AATTTTAACT
* * *
1381364 AAATGTATAGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATATATCGATAT
1 AAATGTATCGATACATTGAAAAATGTATCGATACATCTGGGCAAAAAGACAGAATATATCGATAC
*
1381429 ATTCAT
66 ATTCAA
* * * * *
1381435 ACATGTATCGATACATTGAAAAATGTATGGATACATTTGGGCAAAAAGACAGAATGTATTGATAC
1 AAATGTATCGATACATTGAAAAATGTATCGATACATCTGGGCAAAAAGACAGAATATATCGATAC
*
1381500 ATTGAA
66 ATTCAA
1381506 AAATGTATCGATACAT
1 AAATGTATCGATACAT
1381522 CTCGGTAAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 76 1.00
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (71 bp):
AAATGTATCGATACATTGAAAAATGTATCGATACATCTGGGCAAAAAGACAGAATATATCGATAC
ATTCAA
Found at i:1387165 original size:13 final size:13
Alignment explanation
Indices: 1387147--1387171 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1387137 TAATTCTTTA
1387147 TGTATCGATACAT
1 TGTATCGATACAT
1387160 TGTATCGATACA
1 TGTATCGATACA
1387172 AAGCAATATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1388212 original size:21 final size:21
Alignment explanation
Indices: 1388148--1388273 Score: 112
Period size: 22 Copynumber: 5.8 Consensus size: 21
1388138 GCTAAAATAG
*
1388148 ATAAAGGATCAATCACTTATTC
1 ATAAAGGATTAATC-CTTATTC
* *
1388170 A-AAGAGGATCAATCTTTTATTC
1 ATAA-AGGATTAATC-CTTATTC
*
1388192 ATAAAGGATTGATCCTTATTC
1 ATAAAGGATTAATCCTTATTC
* *
1388213 AAAAAGGATTAATCCCTTATTG
1 ATAAAGGATTAAT-CCTTATTC
* *
1388235 A-AAGAGGATCAATTCCTTATGC
1 ATAA-AGGATTAA-TCCTTATTC
1388257 ATAAAGGATTAATCCTT
1 ATAAAGGATTAATCCTT
1388274 CTTGTAAGGA
Statistics
Matches: 86, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
21 26 0.30
22 55 0.64
23 5 0.06
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (21 bp):
ATAAAGGATTAATCCTTATTC
Found at i:1388260 original size:65 final size:65
Alignment explanation
Indices: 1388150--1388273 Score: 178
Period size: 65 Copynumber: 1.9 Consensus size: 65
1388140 TAAAATAGAT
* * *
1388150 AAAGGATCAATCACTTATTCAAAGAGGATCAATCTTTTATTCATAAAGGATTGATCCTTATTCAA
1 AAAGGATCAATCACTTATTCAAAGAGGATCAATCTCTTATGCATAAAGGATTAATCCTTATTCAA
* * *
1388215 AAAGGATTAATCCCTTATTGAAAGAGGATCAAT-TCCTTATGCATAAAGGATTAATCCTT
1 AAAGGATCAATCACTTATTCAAAGAGGATCAATCT-CTTATGCATAAAGGATTAATCCTT
1388274 CTTGTAAGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 1 0.02
65 51 0.98
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (65 bp):
AAAGGATCAATCACTTATTCAAAGAGGATCAATCTCTTATGCATAAAGGATTAATCCTTATTCAA
Found at i:1389673 original size:34 final size:35
Alignment explanation
Indices: 1389635--1389701 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1389625 CCTTACAATA
1389635 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1389669 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1389702 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1390352 original size:20 final size:20
Alignment explanation
Indices: 1390307--1390360 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
1390297 ATACATATTG
*
1390307 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATGAAA
* *
1390327 TCTGTATCGATAC-ATTTAAA
1 TGTGTATCGATACTA-TGAAA
*
1390347 TGTGTATCAATACT
1 TGTGTATCGATACT
1390361 TTTCAGGGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (20 bp):
TGTGTATCGATACTATGAAA
Found at i:1395670 original size:20 final size:20
Alignment explanation
Indices: 1395645--1395717 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
1395635 TTTGCCTGCA
1395645 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
** *
1395665 TGTATCGATACATTTGAGT-AA
1 TGTATCGATACA-AAGA-TCAG
1395686 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
1395706 TGTATCGATACA
1 TGTATCGATACA
1395718 TTTGAGTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.02
20 27 0.61
21 15 0.34
22 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (20 bp):
TGTATCGATACAAAGATCAG
Found at i:1395677 original size:52 final size:52
Alignment explanation
Indices: 1395528--1395656 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
1395518 CGAAATATGA
*
1395528 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
1395580 AAATTTACTTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1395632 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1395657 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1395691 original size:21 final size:21
Alignment explanation
Indices: 1395665--1395741 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
1395655 CAAAGATCAG
1395665 TGTATCGATACATTTGAGTAA
1 TGTATCGATACATTTGAGTAA
** *
1395686 TGTATCGATACA-AAGA-TCAG
1 TGTATCGATACATTTGAGT-AA
1395706 TGTATCGATACATTTGAGTAA
1 TGTATCGATACATTTGAGTAA
*
1395727 TGTATCAATACATTT
1 TGTATCGATACATTT
1395742 TCTTGGCAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 1 0.02
20 15 0.33
21 29 0.63
22 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAGTAA
Found at i:1395692 original size:41 final size:41
Alignment explanation
Indices: 1395644--1395738 Score: 181
Period size: 41 Copynumber: 2.3 Consensus size: 41
1395634 ATTTGCCTGC
1395644 ATGTATCGATACAAAGATCAGTGTATCGATACATTTGAGTA
1 ATGTATCGATACAAAGATCAGTGTATCGATACATTTGAGTA
1395685 ATGTATCGATACAAAGATCAGTGTATCGATACATTTGAGTA
1 ATGTATCGATACAAAGATCAGTGTATCGATACATTTGAGTA
*
1395726 ATGTATCAATACA
1 ATGTATCGATACA
1395739 TTTTCTTGGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (41 bp):
ATGTATCGATACAAAGATCAGTGTATCGATACATTTGAGTA
Found at i:1395796 original size:19 final size:19
Alignment explanation
Indices: 1395772--1395819 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
1395762 CGATACATTG
1395772 TATCGATACAA-AGCTTATC
1 TATCGATACAACA-CTTATC
*
1395791 TATCGATACAACACTTATG
1 TATCGATACAACACTTATC
1395810 TATCGATACA
1 TATCGATACA
1395820 TTGTATCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (19 bp):
TATCGATACAACACTTATC
Found at i:1395826 original size:13 final size:13
Alignment explanation
Indices: 1395808--1395832 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1395798 ACAACACTTA
1395808 TGTATCGATACAT
1 TGTATCGATACAT
1395821 TGTATCGATACA
1 TGTATCGATACA
1395833 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1395827 original size:32 final size:33
Alignment explanation
Indices: 1395791--1395852 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
1395781 AAAGCTTATC
*
1395791 TATCGATACAACAC-TTATGTATCGATACATTG
1 TATCGATACAACACTTTATGTATCAATACATTG
1395823 TATCGATACAACACTTTATGTATCAATACA
1 TATCGATACAACACTTTATGTATCAATACA
1395853 AATCGTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (33 bp):
TATCGATACAACACTTTATGTATCAATACATTG
Found at i:1396831 original size:49 final size:48
Alignment explanation
Indices: 1396683--1397540 Score: 939
Period size: 49 Copynumber: 18.1 Consensus size: 48
1396673 CTTAGGAATG
*
1396683 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
** * *
1396732 TTAAAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAGTGATATTGGAC
1 TT-AAAGAT----AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
1396785 TTAAAGATGAAGGTGCCAATATGTTGATTTAAGGCCAGCGACATTGGAC
1 TTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
** *
1396834 TTAAAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGAT----AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * * *
1396887 TTAATGGTAAAGGTGCCAATATGTTGATTCAAGGCCAGCAATATTGGAC
1 TTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
1396936 TT----A-AAGGTGCCACTGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
1396979 ATAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
1397028 TT----A-AAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
*
1397071 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
1397120 TT----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
*
1397163 TTAAAGATAACGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATAA-GGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
*
1397212 TT----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
1397255 ATAAAGATAAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
1397304 TT----A-AAGGTGCTATTGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
1397347 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCTAACGATATTGGAC
1 TTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
1397396 TT----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
*
1397439 TTAAAGATAACGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATAA-GGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
1397488 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTAGAC
1 TTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
1397537 TTAA
1 TTAA
1397541 GGAAATACCA
Statistics
Matches: 684, Mismatches: 80, Indels: 90
0.80 0.09 0.11
Matches are distributed among these distances:
43 223 0.33
44 2 0.00
45 5 0.01
47 6 0.01
48 4 0.01
49 346 0.51
50 14 0.02
52 10 0.01
53 74 0.11
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (48 bp):
TTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
Done.