Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008077.1 Hibiscus syriacus cultivar Beakdansim tig00110579_pilon, whole genome shotgun sequence
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: 593651
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:246687 original size:149 final size:149
Alignment explanation
Indices: 246417--246731 Score: 576
Period size: 149 Copynumber: 2.1 Consensus size: 149
246407 TATAATTGCA
* *
246417 CCGAAGTACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
*
246482 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTTAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
* *
246547 CACAGAATATATATATATC
131 CAAAGAATATACATATATC
246566 CCGAAGGACCGCGTAGAATTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
246631 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
246696 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
246715 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
246732 CCCTCGACTC
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 160 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:248976 original size:20 final size:20
Alignment explanation
Indices: 248951--249017 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
248941 GATTCTCTCG
*
248951 TTGCGATAGTCAAATTCGTA
1 TTGCGATAGTCAAATTCGCA
**
248971 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
248991 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
249011 TTGCGAT
1 TTGCGAT
249018 TTTGTTGTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:249048 original size:33 final size:34
Alignment explanation
Indices: 248941--249084 Score: 137
Period size: 33 Copynumber: 4.1 Consensus size: 34
248931 GGATGTTACA
** *
248941 GATTCTCTCGTTGCGATAGTCAAATTCGTATTGC
1 GATTCTCTCGTTGCGATAGTCATTTTCGCATTGC
* *
248975 GATAGTCATTTTCGCATTGCGATAGTCATTTTCGCGTTGC
1 GAT--TC--TCTCG--TTGCGATAGTCATTTTCGCATTGC
* * * **
249015 GATTTTGTTGTTGCGATTTTCA-TTTCGCATTGC
1 GATTCTCTCGTTGCGATAGTCATTTTCGCATTGC
249048 GATTCTCTCGTTGCGATAGTCATTTTCGCATTGC
1 GATTCTCTCGTTGCGATAGTCATTTTCGCATTGC
249082 GAT
1 GAT
249085 ATTAAACTAT
Statistics
Matches: 87, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
33 27 0.31
34 27 0.31
36 5 0.06
38 5 0.06
40 23 0.26
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (34 bp):
GATTCTCTCGTTGCGATAGTCATTTTCGCATTGC
Found at i:250991 original size:20 final size:20
Alignment explanation
Indices: 250968--251057 Score: 101
Period size: 20 Copynumber: 4.5 Consensus size: 20
250958 TCTGAAACTT
250968 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
250988 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
251008 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** *
251028 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
251047 AAAATCGCAAC
1 AAAATCGCAAC
251058 GACAGAATCG
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 12 0.20
20 49 0.80
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:251448 original size:22 final size:22
Alignment explanation
Indices: 251386--251451 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
251376 TGACTGTGAA
* *
251386 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
251408 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
*
251430 TGATTTCGTCGAAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
251452 GGACGTCACC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.23, C:0.15, G:0.38, T:0.24
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:251679 original size:20 final size:20
Alignment explanation
Indices: 251631--251741 Score: 127
Period size: 20 Copynumber: 5.5 Consensus size: 20
251621 GCTATGTAAA
251631 TCGCATTGCGATAGTTA-G-AT
1 TCGCATTGCGAT--TTACGTAT
*
251651 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* *
251671 TTGTATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* *
251691 TCACATTGTGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
**
251711 TCGCATTTTGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
251731 TCGCATTGCGA
1 TCGCATTGCGA
251742 ATTAGGAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
18 3 0.04
19 1 0.01
20 73 0.95
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:251762 original size:21 final size:21
Alignment explanation
Indices: 251738--251783 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
251728 TATTCGCATT
251738 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
251759 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
251780 GCGA
1 GCGA
251784 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:253826 original size:31 final size:32
Alignment explanation
Indices: 253751--253827 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
253741 TAATATGGTT
253751 GAGGGACTAAAATCAAACGGGAGATAATGATC
1 GAGGGACTAAAATCAAACGGGAGATAATGATC
**
253783 GAGAAACTAAAATCAAAC-GGATCGATAATG-T-
1 GAGGGACTAAAATCAAACGGGA--GATAATGATC
*
253814 TAGGGACTAAAATC
1 GAGGGACTAAAATC
253828 GAATGGACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
31 14 0.37
32 17 0.45
33 7 0.18
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.18
Consensus pattern (32 bp):
GAGGGACTAAAATCAAACGGGAGATAATGATC
Found at i:262043 original size:20 final size:19
Alignment explanation
Indices: 262020--262066 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
262010 CGATATACCA
262020 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
262040 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
262060 GGTAAAA
1 GGTAAAA
262067 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:262154 original size:182 final size:183
Alignment explanation
Indices: 261807--262281 Score: 711
Period size: 182 Copynumber: 2.6 Consensus size: 183
261797 GATCCAAATT
* * * * *
261807 AAAAATGTGTCGATCCAAAACGATATAACATGTAAAACTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * * *
261871 AAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGAATCGACACTT
* *
261936 CGTGAATTTAAAAGAGAAGCAATTTTAAATCCTATAAAGTGTCGATACTTTTAA
130 CGTGAATTTAAAAGAGAAGCAATTTTAAAGCCTATAAAGTGTCGATACTTTAAA
*
261990 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
262055 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGAATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGAATCGACACTTC
* ** *
262119 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAAA
131 GTGAATTTAAAAGAGAAGCAATTTTAAAGCCTATAAAGTGTCGATACTTTAAA
* * *
262172 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
*
262237 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
262282 CGTAAGTACG
Statistics
Matches: 266, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
182 169 0.64
183 97 0.36
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (183 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGAATCGACACTTC
GTGAATTTAAAAGAGAAGCAATTTTAAAGCCTATAAAGTGTCGATACTTTAAA
Found at i:264494 original size:21 final size:21
Alignment explanation
Indices: 264468--264532 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
264458 AAGACAATCA
*
264468 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
264489 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
264510 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
264531 AG
1 AG
264533 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:264608 original size:33 final size:33
Alignment explanation
Indices: 264566--264631 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
264556 AAATAGATGG
*
264566 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
264599 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
264632 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:266467 original size:19 final size:19
Alignment explanation
Indices: 266424--266470 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
266414 TGTATGGTTA
266424 ATTTTT-TATAAGATTTAT
1 ATTTTTGTATAAGATTTAT
* *
266442 AATTTTGTATACGATTTAT
1 ATTTTTGTATAAGATTTAT
266461 ATTTTTGTAT
1 ATTTTTGTAT
266471 GTGAATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.60
Consensus pattern (19 bp):
ATTTTTGTATAAGATTTAT
Found at i:266932 original size:200 final size:199
Alignment explanation
Indices: 266589--268766 Score: 4122
Period size: 200 Copynumber: 10.9 Consensus size: 199
266579 CAATATGGCC
*
266589 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
266654 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACTGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
266719 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTACAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTT-GTCCAGAATGAA
*
266784 TAGAA
195 TGGAA
266789 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
266854 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
266919 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTTGTCCAGAATGA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA--TTTTTGTCCAGAATGA
266984 ATGGAA
194 ATGGAA
*
266990 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
* *
267055 CCAAAAGTATACTGTAATATGTAATTTTTCAATCTAACCGGTACAAATATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
267120 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA-TTTTTGTCCAGAATGAA
267185 TGGAA
195 TGGAA
*
267190 AACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
267255 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
267320 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTGTCCAGAATGAAT
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGTCCAGAATGAAT
267385 GGAA
196 GGAA
267389 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
267454 CCAAAAGTATACTGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
267519 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA-TTTTTGTCCAGAATGAA
267584 TGGAA
195 TGGAA
267589 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
267654 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
267719 GAATATGTCTAAATAATGTGTCGAAACTTTTTTAGTTTGTGTCGATAGTTTTGTCCAGAATGAAT
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGTCCAGAATGAAT
267784 GGAA
196 GGAA
267788 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
267853 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
267918 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA-TTTTTGTCCAGAATGAA
267983 TGGAA
195 TGGAA
* *
267988 AATAGGATGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
268053 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
268118 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA-TTTTTGTCCAGAATGAA
268183 TGGAA
195 TGGAA
268188 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
268253 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACTGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
268318 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA-TTTTTGTCCAGAATGAA
268383 TGGAA
195 TGGAA
268388 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
268453 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
268518 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA-TTTTTGTCCAGAATGAA
268583 TGGAA
195 TGGAA
268588 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
268653 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
268718 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATT
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATT
268767 AATTTAAATA
Statistics
Matches: 1941, Mismatches: 33, Indels: 9
0.98 0.02 0.00
Matches are distributed among these distances:
199 395 0.20
200 1353 0.70
201 188 0.10
202 5 0.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGTCCAGAATGAAT
GGAA
Found at i:268364 original size:400 final size:400
Alignment explanation
Indices: 266589--268764 Score: 4151
Period size: 399 Copynumber: 5.4 Consensus size: 400
266579 CAATATGGCC
*
266589 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
266654 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACTGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
266719 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA-TTTTTGGTACAGAATGA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTT-GTCCAGAATGA
*
266783 ATAGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
195 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
*
266848 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
260 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
266913 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTTGTCCA
325 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA-GTTTTTGTCCA
266978 GAATGAATGGAA
389 GAATGAATGGAA
*
266990 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
* *
267055 CCAAAAGTATACTGTAATATGTAATTTTTCAATCTAACCGGTACAAATATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
267120 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
*
267185 TGGAAAACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
267250 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
261 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
267315 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAG-TTTTGTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGA
267379 ATGAATGGAA
391 ATGAATGGAA
267389 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
267454 CCAAAAGTATACTGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
267519 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
267584 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
267649 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
261 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
*
267714 TGAGAGAATATGTCTAAATAATGTGTCGAAACTTTTTTAGTTTGTGTCGATAG-TTTTGTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGA
267778 ATGAATGGAA
391 ATGAATGGAA
267788 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
267853 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
267918 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
* *
267983 TGGAAAATAGGATGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
*
268048 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTA
261 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
268113 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGA
268178 ATGAATGGAA
391 ATGAATGGAA
268188 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
268253 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACTGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
268318 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
268383 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
268448 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
261 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
*
268513 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGA
268578 ATGAATGGAA
391 ATGAATGGAA
268588 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
268653 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
268718 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
268765 TTAATTTAAA
Statistics
Matches: 1746, Mismatches: 27, Indels: 5
0.98 0.02 0.00
Matches are distributed among these distances:
399 788 0.45
400 591 0.34
401 362 0.21
402 5 0.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (400 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGAATGAA
TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAGTTTTTGTCCAGA
ATGAATGGAA
Found at i:270235 original size:12 final size:12
Alignment explanation
Indices: 270213--270306 Score: 98
Period size: 12 Copynumber: 7.8 Consensus size: 12
270203 CAAGCGGTCA
*
270213 ATGAAGATGAAG
1 ATGACGATGAAG
*
270225 CTGACGATGAAG
1 ATGACGATGAAG
*
270237 ATGACGATGATG
1 ATGACGATGAAG
270249 ATGACGATGAAG
1 ATGACGATGAAG
*
270261 CTGACGATGAAG
1 ATGACGATGAAG
* * *
270273 ATGATGACGATG
1 ATGACGATGAAG
* *
270285 ATGATGATGATG
1 ATGACGATGAAG
*
270297 ATGATGATGA
1 ATGACGATGA
270307 TGATCCAAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 71 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:270250 original size:3 final size:3
Alignment explanation
Indices: 270230--270310 Score: 90
Period size: 3 Copynumber: 27.0 Consensus size: 3
270220 TGAAGCTGAC
* * * * * * *
270230 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
270278 GAC GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
270311 CCAAACAAGT
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:270265 original size:36 final size:36
Alignment explanation
Indices: 270213--270294 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
270203 CAAGCGGTCA
*
270213 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
* *
270249 ATGACGATGAAGCTGACGATGAAGATGATGACGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
*
270285 ATGATGATGA
1 ATGAAGATGA
270295 TGATGATGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.38, C:0.09, G:0.33, T:0.21
Consensus pattern (36 bp):
ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
Found at i:272590 original size:183 final size:183
Alignment explanation
Indices: 272280--272772 Score: 898
Period size: 183 Copynumber: 2.7 Consensus size: 183
272270 GCAATACTAT
*
272280 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
* *
272345 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTCAAAATGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCGAC
272409 AGTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
130 AGTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
272463 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
* *
272528 GTGTCGGTACTTAATGTCCAGATTAGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
* *
272593 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
131 GTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
*
272646 CGGTATAAATATACCGGTTTTATGAGCGAACAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
272711 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
272773 GTAATTTTAA
Statistics
Matches: 299, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 295 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (183 bp):
CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
GTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:275653 original size:23 final size:23
Alignment explanation
Indices: 275622--275681 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
275612 ATAGGTAAAA
* *
275622 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGATAGCGCTT
* *
275645 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGATAGCGCTT
*
275668 GTATAATGTAATAG
1 ATATAATGTAATAG
275682 TTAGTGGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGATAGCGCTT
Found at i:283527 original size:167 final size:167
Alignment explanation
Indices: 283251--283584 Score: 641
Period size: 167 Copynumber: 2.0 Consensus size: 167
283241 AAATGACGAG
*
283251 TAAAACCTCATTAAAGTAATTGGTAATAGAGCAATTTATTATTGAAATTCATTTAATTTGAATAT
1 TAAAACCTCATTAAAGTAATTGGTAATAAAGCAATTTATTATTGAAATTCATTTAATTTGAATAT
*
283316 GCATATATTAAAAATCATAGACCCATATGTTCTAAATCAAGTATTAACTATTATTCTAGTTTTGT
66 GCATATATTAAAAATCATAGACCCATATGTTCTAAATAAAGTATTAACTATTATTCTAGTTTTGT
283381 TAAAATTTTCTTATTAATCTGCAATCAACAACAACAA
131 TAAAATTTTCTTATTAATCTGCAATCAACAACAACAA
283418 TAAAACCTCATTAAAGTAATTGGTAATAAAGCAATTTATTATTGAAATTCATTTAATTTGAATAT
1 TAAAACCTCATTAAAGTAATTGGTAATAAAGCAATTTATTATTGAAATTCATTTAATTTGAATAT
*
283483 GCATATATTAAAAATCATATACCCATATGTTCTAAATAAAGTATTAACTATTATTCTAGTTTTGT
66 GCATATATTAAAAATCATAGACCCATATGTTCTAAATAAAGTATTAACTATTATTCTAGTTTTGT
283548 TAAAATTTTCTTATTAATCTGCAATCAACAACAACAA
131 TAAAATTTTCTTATTAATCTGCAATCAACAACAACAA
283585 CAATAAAACT
Statistics
Matches: 164, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 164 1.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (167 bp):
TAAAACCTCATTAAAGTAATTGGTAATAAAGCAATTTATTATTGAAATTCATTTAATTTGAATAT
GCATATATTAAAAATCATAGACCCATATGTTCTAAATAAAGTATTAACTATTATTCTAGTTTTGT
TAAAATTTTCTTATTAATCTGCAATCAACAACAACAA
Found at i:288209 original size:21 final size:22
Alignment explanation
Indices: 288185--288225 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
288175 GTACTTCAAA
288185 ATATTTTA-TATTTTTTAAAAG
1 ATATTTTATTATTTTTTAAAAG
288206 ATATTTTATTATTTTTTAAA
1 ATATTTTATTATTTTTTAAA
288226 TTTTAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
ATATTTTATTATTTTTTAAAAG
Found at i:300174 original size:62 final size:62
Alignment explanation
Indices: 300072--300211 Score: 244
Period size: 62 Copynumber: 2.3 Consensus size: 62
300062 CTTCATTTTC
*
300072 GTGATATTTGAATCGACGGCGAAGTGAAGAGTGAGGAGCGAAACAGAAGGCAATGGAGAAAT
1 GTGACATTTGAATCGACGGCGAAGTGAAGAGTGAGGAGCGAAACAGAAGGCAATGGAGAAAT
* * *
300134 GTGGCATTTGGATCGACGGCGAAGTGACGAGTGAGGAGCGAAACAGAAGGCAATGGAGAAAT
1 GTGACATTTGAATCGACGGCGAAGTGAAGAGTGAGGAGCGAAACAGAAGGCAATGGAGAAAT
300196 GTGACATTTGAATCGA
1 GTGACATTTGAATCGA
300212 AGTGGTGGCT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 72 1.00
ACGTcount: A:0.36, C:0.11, G:0.36, T:0.17
Consensus pattern (62 bp):
GTGACATTTGAATCGACGGCGAAGTGAAGAGTGAGGAGCGAAACAGAAGGCAATGGAGAAAT
Found at i:302126 original size:5 final size:5
Alignment explanation
Indices: 302116--302141 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
302106 ACTTCTTCAA
302116 TCTCT TCTCT TCTCT TCTCT TCTCT T
1 TCTCT TCTCT TCTCT TCTCT TCTCT T
302142 TAACACATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TCTCT
Found at i:309969 original size:2 final size:2
Alignment explanation
Indices: 309962--310022 Score: 51
Period size: 2 Copynumber: 32.5 Consensus size: 2
309952 CCGCCCCGAT
* * *
309962 TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TT TA TA TT TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
310002 TA T- TA -A GTA TA TA TA TA -A TA T
1 TA TA TA TA -TA TA TA TA TA TA TA T
310023 TTTCGGATTC
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
1 5 0.10
2 44 0.88
3 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:311435 original size:20 final size:20
Alignment explanation
Indices: 311391--311436 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
311381 CTAAAAATCG
311391 AAATATTATATTATATTCAT
1 AAATATTATATTATATTCAT
*
311411 TAATATTATCAATT-TATT-AT
1 AAATATTAT--ATTATATTCAT
311431 AAATAT
1 AAATAT
311437 ATGTACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 15 0.68
21 4 0.18
22 3 0.14
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATATTATATTATATTCAT
Found at i:312973 original size:20 final size:20
Alignment explanation
Indices: 312929--313143 Score: 121
Period size: 20 Copynumber: 10.6 Consensus size: 20
312919 AATGACCAAT
* * *
312929 AAAATCGTAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
312948 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
312968 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
312988 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
313008 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
313029 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
313052 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
313072 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* * *
313092 AGAGTCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
313112 AGAGTCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
313132 AAAATCGCAACG
1 AAAATCGCAACG
313144 GTCAAAAGAA
Statistics
Matches: 155, Mismatches: 32, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
19 16 0.10
20 111 0.72
21 14 0.09
23 14 0.09
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:313239 original size:6 final size:6
Alignment explanation
Indices: 313228--313301 Score: 141
Period size: 6 Copynumber: 12.5 Consensus size: 6
313218 GACACGTATT
313228 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
313276 ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
313302 CGAGACGAGA
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 5 0.07
6 63 0.93
ACGTcount: A:0.32, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:314004 original size:6 final size:6
Alignment explanation
Indices: 313988--314056 Score: 131
Period size: 6 Copynumber: 11.7 Consensus size: 6
313978 TCTCGTCTCG
313988 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
314035 GGTCGT GGTCGT GGTCGT GGTC
1 GGTCGT GGTCGT GGTCGT GGTC
314057 ATACGTGTCT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.08
6 58 0.92
ACGTcount: A:0.00, C:0.17, G:0.51, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:314188 original size:20 final size:20
Alignment explanation
Indices: 314165--314495 Score: 547
Period size: 20 Copynumber: 16.4 Consensus size: 20
314155 ATTTTCAACG
*
314165 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTATCAATCGCA
* *
314185 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTATCAATCGCA
*
314205 TTGCGATTTTCT-TCTAAATCGCG
1 TTGCGA--TTCTATC--AATCGCA
* *
314228 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTATCAATCGCA
* *
314248 TTGCGATTATATAAATCGCA
1 TTGCGATTCTATCAATCGCA
314268 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
314288 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
314308 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
314328 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
314348 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
314368 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
314388 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
314408 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
314428 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
314448 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
314468 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
314488 TTGCGATT
1 TTGCGATT
314496 TTCTTCTAAA
Statistics
Matches: 293, Mismatches: 13, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
20 271 0.92
21 5 0.02
22 6 0.02
23 11 0.04
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (20 bp):
TTGCGATTCTATCAATCGCA
Found at i:314532 original size:21 final size:21
Alignment explanation
Indices: 314506--314581 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 21
314496 TTCTTCTAAA
314506 TCGCGTTGCGAACTTGGAAGC
1 TCGCGTTGCGAACTTGGAAGC
* ** *
314527 TCGCGTTGCGATTTTCTTCTAA-A
1 TCGCGTTGCGA---ACTTGGAAGC
314550 TCGCGTTGCGAACTTGGAAGC
1 TCGCGTTGCGAACTTGGAAGC
314571 TCGCGTTGCGA
1 TCGCGTTGCGA
314582 TTTTCTTTTG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
20 5 0.12
21 22 0.51
23 11 0.26
24 5 0.12
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGAACTTGGAAGC
Found at i:314538 original size:44 final size:44
Alignment explanation
Indices: 314483--314588 Score: 203
Period size: 44 Copynumber: 2.4 Consensus size: 44
314473 ATTCTATCAA
*
314483 TCGCATTGCGATTTTCTTCTAAATCGCGTTGCGAACTTGGAAGC
1 TCGCGTTGCGATTTTCTTCTAAATCGCGTTGCGAACTTGGAAGC
314527 TCGCGTTGCGATTTTCTTCTAAATCGCGTTGCGAACTTGGAAGC
1 TCGCGTTGCGATTTTCTTCTAAATCGCGTTGCGAACTTGGAAGC
314571 TCGCGTTGCGATTTTCTT
1 TCGCGTTGCGATTTTCTT
314589 TTGACCGTTG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.37
Consensus pattern (44 bp):
TCGCGTTGCGATTTTCTTCTAAATCGCGTTGCGAACTTGGAAGC
Found at i:314599 original size:20 final size:20
Alignment explanation
Indices: 314574--314627 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
314564 TGGAAGCTCG
*
314574 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAA
*
314594 CGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTTTTGAA
314614 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
314628 AAATCGCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.19, G:0.19, T:0.52
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTGAA
Found at i:314654 original size:19 final size:20
Alignment explanation
Indices: 314614--314664 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
314604 TTCTTTTTAA
*
314614 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
314634 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
314653 CGTTGCGATTTT
1 CGTTGCGATTTT
314665 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:316162 original size:17 final size:18
Alignment explanation
Indices: 316107--316156 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
316097 ATTAGTATTT
*
316107 ATAA-TAATATAATATAA
1 ATAATTAATATTATATAA
**
316124 TATTTTTAATATTATATAA
1 -ATAATTAATATTATATAA
316143 ATAATTAA-ATTATA
1 ATAATTAATATTATA
316157 ATAATATAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 6 0.23
18 8 0.31
19 12 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAATTAATATTATATAA
Found at i:316217 original size:27 final size:28
Alignment explanation
Indices: 316187--316249 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 28
316177 TTTATTTTAA
316187 TAATATAT-AATAAAATT-TTTATATATT
1 TAATA-ATGAATAAAATTATTTATATATT
* *
316214 TAATAATGAATAATATTATTTATATGTT
1 TAATAATGAATAAAATTATTTATATATT
316242 TAAATAAT
1 T-AATAAT
316250 ATTTTAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.06
27 13 0.42
28 10 0.32
29 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (28 bp):
TAATAATGAATAAAATTATTTATATATT
Found at i:316280 original size:23 final size:23
Alignment explanation
Indices: 316254--316298 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
316244 AATAATATTT
316254 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
316277 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
316299 ATATGATACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:317681 original size:18 final size:18
Alignment explanation
Indices: 317658--317704 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
317648 CTTTGTGGCC
317658 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
317676 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
317694 GAAGCGTGAGA
1 GAAGCGTGAGA
317705 CTAATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (18 bp):
GAAGCGTGAGATTCGTCT
Found at i:318745 original size:14 final size:14
Alignment explanation
Indices: 318726--319131 Score: 181
Period size: 14 Copynumber: 31.0 Consensus size: 14
318716 CTTAATAATT
318726 ACTTTAATGATTTA
1 ACTTTAATGATTTA
318740 ACTTTAATGATTTA
1 ACTTTAATGATTTA
*
318754 A---TAAT-AATT-
1 ACTTTAATGATTTA
318763 ACTTTAATGATTTA
1 ACTTTAATGATTTA
*
318777 ATTTTAATGATTTA
1 ACTTTAATGATTTA
*
318791 A---TAAT-AATT-
1 ACTTTAATGATTTA
318800 ACTTTAATGATTTA
1 ACTTTAATGATTTA
*
318814 ATTTTAATGATTTA
1 ACTTTAATGATTTA
318828 A---T-A--ATTTA
1 ACTTTAATGATTTA
318836 ACTTTAATGATTTA
1 ACTTTAATGATTTA
*
318850 A---TAAT-AATT-
1 ACTTTAATGATTTA
318859 ACTTTAATGATTTA
1 ACTTTAATGATTTA
318873 ACTTTAATGATTTA
1 ACTTTAATGATTTA
*
318887 A---TAAT-AATT-
1 ACTTTAATGATTTA
318896 ACTTTAATGATTTA
1 ACTTTAATGATTTA
*
318910 ATGATTTAATGATTTA
1 A--CTTTAATGATTTA
* *
318926 A-TAATAATTATTTTA
1 ACT-TTAATGA-TTTA
*
318941 ATGATTTAATGATTTA
1 A--CTTTAATGATTTA
*
318957 A---TAAT-AATT-
1 ACTTTAATGATTTA
318966 ACTTTAATGATTTA
1 ACTTTAATGATTTA
*
318980 ACTTTAATGCTTTA
1 ACTTTAATGATTTA
*
318994 A---TAAT-AATT-
1 ACTTTAATGATTTA
319003 ACTTTAATGATTTA
1 ACTTTAATGATTTA
* *
319017 ATGATTTAATAATAATT-
1 A--CTTTAATGAT--TTA
319034 ACTTTAATGATTTA
1 ACTTTAATGATTTA
* *
319048 ATTTTAATAATTTA
1 ACTTTAATGATTTA
* * *
319062 A-TAATAATTACTTA
1 ACT-TTAATGATTTA
* *
319076 ATTTTAATTATTTA
1 ACTTTAATGATTTA
*
319090 ATTTTAATGATTTA
1 ACTTTAATGATTTA
* * * *
319104 A-TAATAATTACTTG
1 ACT-TTAATGATTTA
319118 ACTTTAATGATTTA
1 ACTTTAATGATTTA
319132 TATTTACTGA
Statistics
Matches: 299, Mismatches: 41, Indels: 104
0.67 0.09 0.23
Matches are distributed among these distances:
8 6 0.02
9 6 0.02
10 18 0.06
11 26 0.09
12 25 0.08
13 23 0.08
14 145 0.48
15 15 0.05
16 26 0.09
17 6 0.02
18 3 0.01
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.50
Consensus pattern (14 bp):
ACTTTAATGATTTA
Found at i:318762 original size:37 final size:37
Alignment explanation
Indices: 318718--318888 Score: 242
Period size: 37 Copynumber: 4.6 Consensus size: 37
318708 CATCAATACT
*
318718 TAATAATTACTTTAATGATTTAACTTTAATGATTTAA
1 TAATAATTACTTTAATGATTTAATTTTAATGATTTAA
318755 TAATAATTACTTTAATGATTTAATTTTAATGATTTAA
1 TAATAATTACTTTAATGATTTAATTTTAATGATTTAA
318792 TAATAATTACTTTAATGATTTAATTTTAATGATTTAA
1 TAATAATTACTTTAATGATTTAATTTTAATGATTTAA
** *
318829 TAAT--TTAACTTTAATGATTTAATAATAATTACTTTAA
1 TAATAATT-ACTTTAATGATTTAATTTTAATGA-TTTAA
*
318866 TGAT--TTAACTTTAATGATTTAAT
1 TAATAATT-ACTTTAATGATTTAAT
318889 AATAATTACT
Statistics
Matches: 127, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
35 2 0.02
36 21 0.17
37 104 0.82
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.50
Consensus pattern (37 bp):
TAATAATTACTTTAATGATTTAATTTTAATGATTTAA
Found at i:318766 original size:23 final size:21
Alignment explanation
Indices: 318742--318815 Score: 58
Period size: 23 Copynumber: 3.3 Consensus size: 21
318732 ATGATTTAAC
*
318742 TTTAATGATTTAATAATAATTA
1 TTTAATGATTTAAT-TTAATTA
*
318764 CTTTAATGATTTAATTTTAATGA
1 -TTTAATGATTTAA-TTTAATTA
* * *
318787 TTTAATAATAATTACTTTAATGA
1 TTTAATGAT--TTAATTTAATTA
318810 TTTAAT
1 TTTAAT
318816 TTTAATGATT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.18
23 32 0.73
24 4 0.09
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (21 bp):
TTTAATGATTTAATTTAATTA
Found at i:318807 original size:9 final size:8
Alignment explanation
Indices: 318721--319105 Score: 104
Period size: 8 Copynumber: 51.5 Consensus size: 8
318711 CAATACTTAA
318721 TAATTACTT
1 TAATTA-TT
*
318730 TAATGATT
1 TAATTATT
*
318738 TAA--CTT
1 TAATTATT
*
318744 TAATGATT
1 TAATTATT
*
318752 TAA-TA-A
1 TAATTATT
318758 TAATTACTT
1 TAATTA-TT
*
318767 TAATGATT
1 TAATTATT
318775 TAA-T-TT
1 TAATTATT
*
318781 TAATGATT
1 TAATTATT
*
318789 TAA-TA-A
1 TAATTATT
318795 TAATTACTT
1 TAATTA-TT
*
318804 TAATGATT
1 TAATTATT
318812 TAA-T-TT
1 TAATTATT
*
318818 TAATGATT
1 TAATTATT
*
318826 TAATAATT
1 TAATTATT
*
318834 TAA--CTT
1 TAATTATT
*
318840 TAATGATT
1 TAATTATT
*
318848 TAA-TA-A
1 TAATTATT
318854 TAATTACTT
1 TAATTA-TT
*
318863 TAATGATT
1 TAATTATT
*
318871 TAA--CTT
1 TAATTATT
*
318877 TAATGATT
1 TAATTATT
*
318885 TAA-TA-A
1 TAATTATT
318891 TAATTACTT
1 TAATTA-TT
*
318900 TAATGATT
1 TAATTATT
*
318908 TAATGATT
1 TAATTATT
*
318916 TAATGATT
1 TAATTATT
*
318924 TAA-TA-A
1 TAATTATT
318930 TAATTATTT
1 TAATTA-TT
*
318939 TAATGATT
1 TAATTATT
*
318947 TAATGATT
1 TAATTATT
*
318955 TAA-TA-A
1 TAATTATT
318961 TAATTACTT
1 TAATTA-TT
*
318970 TAATGATT
1 TAATTATT
*
318978 TAA--CTT
1 TAATTATT
**
318984 TAATGCTT
1 TAATTATT
*
318992 TAA-TA-A
1 TAATTATT
318998 TAATTACTT
1 TAATTA-TT
*
319007 TAATGATT
1 TAATTATT
*
319015 TAATGATT
1 TAATTATT
*
319023 TAA-TA-A
1 TAATTATT
319029 TAATTACTT
1 TAATTA-TT
*
319038 TAATGATT
1 TAATTATT
319046 TAA-T-TT
1 TAATTATT
*
319052 TAATAATT
1 TAATTATT
*
319060 TAA-TA-A
1 TAATTATT
*
319066 TAATTACT
1 TAATTATT
319074 TAA-T-TT
1 TAATTATT
319080 TAATTATT
1 TAATTATT
319088 TAA-T-TT
1 TAATTATT
*
319094 TAATGATT
1 TAATTATT
319102 TAAT
1 TAAT
319106 AATAATTACT
Statistics
Matches: 279, Mismatches: 53, Indels: 89
0.66 0.13 0.21
Matches are distributed among these distances:
6 71 0.25
7 29 0.10
8 134 0.48
9 45 0.16
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.51
Consensus pattern (8 bp):
TAATTATT
Found at i:318821 original size:23 final size:23
Alignment explanation
Indices: 318779--319063 Score: 183
Period size: 23 Copynumber: 12.3 Consensus size: 23
318769 ATGATTTAAT
**
318779 TTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATTAC
*
318802 TTTAATGATTTAATTTTAATGA-
1 TTTAATGATTTAATTTTAATTAC
* * *
318824 TTTAATAATTTAACTTTAATGA-
1 TTTAATGATTTAATTTTAATTAC
* * *
318846 TTTAATAATAATTACTTTAATGATTTAAC
1 TTTAATGAT--TTAATTT--T-AATT-AC
**
318875 TTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATTAC
*
318898 TTTAATGATTTAATGATTTAATGA-
1 TTTAATGATTTAAT--TTTAATTAC
* *
318922 TTTAATAATAATT-ATTTTAATGA-
1 TTTAATGAT--TTAATTTTAATTAC
**
318945 TTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATTAC
* *
318968 TTTAATGATTTAACTTTAA-TGC
1 TTTAATGATTTAATTTTAATTAC
* * *
318990 TTTAATAATAATT-ACTTTAATGA-
1 TTTAATGAT--TTAATTTTAATTAC
**
319013 TTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATTTTAATTAC
*
319036 TTTAATGATTTAATTTTAA-TAA
1 TTTAATGATTTAATTTTAATTAC
319058 TTTAAT
1 TTTAAT
319064 AATAATTACT
Statistics
Matches: 207, Mismatches: 37, Indels: 37
0.74 0.13 0.13
Matches are distributed among these distances:
21 4 0.02
22 60 0.29
23 99 0.48
24 18 0.09
25 8 0.04
26 3 0.01
27 6 0.03
28 1 0.00
29 8 0.04
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.50
Consensus pattern (23 bp):
TTTAATGATTTAATTTTAATTAC
Found at i:318889 original size:37 final size:37
Alignment explanation
Indices: 318763--319116 Score: 387
Period size: 37 Copynumber: 9.7 Consensus size: 37
318753 AATAATAATT
** * *
318763 ACTTTAATGATTTAATTTTAATGA-TTTAATAATAATT-
1 ACTTTAATGATTTAATAATAATTACTTTAATGAT--TTA
** * *
318800 ACTTTAATGATTTAATTTTAATGA-TTTAATAATTTA
1 ACTTTAATGATTTAATAATAATTACTTTAATGATTTA
318836 ACTTTAATGATTTAATAATAATTACTTTAATGATTTA
1 ACTTTAATGATTTAATAATAATTACTTTAATGATTTA
318873 ACTTTAATGATTTAATAATAATTACTTTAATGATTTA
1 ACTTTAATGATTTAATAATAATTACTTTAATGATTTA
* *
318910 ATGATTTAATGATTTAATAATAATTATTTTAATG-----
1 A--CTTTAATGATTTAATAATAATTACTTTAATGATTTA
318944 A-TTTAATGATTTAATAATAATTACTTTAATGATTTA
1 ACTTTAATGATTTAATAATAATTACTTTAATGATTTA
*
318980 ACTTTAATGCTTTAATAATAATTACTTTAATG-----
1 ACTTTAATGATTTAATAATAATTACTTTAATGATTTA
319012 A-TTTAATGATTTAATAATAATTACTTTAATGATTTA
1 ACTTTAATGATTTAATAATAATTACTTTAATGATTTA
* * *
319048 ATTTTAATAATTTAATAATAATTACTTAATTTTAATTATTTA
1 ACTTTAATGATTTAATAATAATTAC-----TTTAATGATTTA
*
319090 ATTTTAATGATTTAATAATAATTACTT
1 ACTTTAATGATTTAATAATAATTACTT
319117 GACTTTAATG
Statistics
Matches: 284, Mismatches: 12, Indels: 42
0.84 0.04 0.12
Matches are distributed among these distances:
31 58 0.20
32 1 0.00
34 1 0.00
35 2 0.01
36 23 0.08
37 135 0.48
39 29 0.10
42 35 0.12
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.51
Consensus pattern (37 bp):
ACTTTAATGATTTAATAATAATTACTTTAATGATTTA
Found at i:318892 original size:96 final size:98
Alignment explanation
Indices: 318728--319116 Score: 485
Period size: 96 Copynumber: 3.8 Consensus size: 98
318718 TAATAATTAC
* *
318728 TTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGATTTAAT
1 TTTAATAATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAAT
318793 AATAATTACTTTAATGATTTAAT-TTTAATGA-
66 AATAATTACTTTAATGATTTAATATTTAATGAT
318824 TTTAATAATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAAT
1 TTTAATAATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAAT
318889 AATAATTACTTTAATGATTTAATGATTTAATGAT
66 AATAATTACTTTAATGATTTAAT-ATTTAATGAT
*
318923 TTAATAATAATTATTTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAAT
1 TT--TAAT-A--A-TTTAA--CTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAAT
* *
318988 GCTTTAATAATAATTACTTTAATGATTTAATGATTTAATAATAATT
58 GATTTAATAATAATTACTTTAATGATTTAAT-A-TT--TAATGA-T
* * * * *
319034 ACTTTAATGATTTAATTTTAATAATTTAATAATAATTACTTAATTTTAATTATTTAATTTTAATG
1 --TTTAATAATTTAACTTTAATGATTTAATAATAATTAC-----TTTAATGATTTAACTTTAATG
319099 ATTTAATAATAATTACTT
59 ATTTAATAATAATTACTT
319117 GACTTTAATG
Statistics
Matches: 260, Mismatches: 11, Indels: 30
0.86 0.04 0.10
Matches are distributed among these distances:
96 86 0.33
98 8 0.03
99 2 0.01
101 4 0.02
102 1 0.00
104 1 0.00
105 27 0.10
107 80 0.31
108 3 0.01
110 41 0.16
111 5 0.02
113 2 0.01
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.51
Consensus pattern (98 bp):
TTTAATAATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAAT
AATAATTACTTTAATGATTTAATATTTAATGAT
Found at i:318912 original size:31 final size:31
Alignment explanation
Indices: 318779--319058 Score: 268
Period size: 31 Copynumber: 8.5 Consensus size: 31
318769 ATGATTTAAT
318779 TTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGA
* * *
318810 TTTAAT--TTTAATGATTTAA-TAATTTAA--C
1 TTTAATGATTTAAT-A-ATAATTACTTTAATGA
318838 TTTAATGATTTAATAATAATTACTTTAATGATTTAA
1 TTTAATGATTTAATAATAATTACTTTAATG-----A
318874 CTTTAATGATTTAATAATAATTACTTTAATGATTTAATGA
1 -TTTAATGATTTAATAATAATTAC--------TTTAATGA
*
318914 TTTAATGATTTAATAATAATTATTTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGA
318945 TTTAATGATTTAATAATAATTACTTTAATGATTTAA
1 TTTAATGATTTAATAATAATTACTTTAATG-----A
*
318981 CTTTAATGCTTTAATAATAATTACTTTAATGA
1 -TTTAATGATTTAATAATAATTACTTTAATGA
319013 TTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGA
319044 TTTAAT--TTTAATAAT
1 TTTAATGATTTAATAAT
319059 TTAATAATAA
Statistics
Matches: 212, Mismatches: 10, Indels: 56
0.76 0.04 0.20
Matches are distributed among these distances:
28 9 0.04
29 23 0.11
30 14 0.07
31 82 0.39
32 1 0.00
36 1 0.00
37 52 0.25
39 22 0.10
40 1 0.00
45 7 0.03
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.50
Consensus pattern (31 bp):
TTTAATGATTTAATAATAATTACTTTAATGA
Found at i:318976 original size:107 final size:104
Alignment explanation
Indices: 318802--319116 Score: 398
Period size: 107 Copynumber: 2.9 Consensus size: 104
318792 TAATAATTAC
** * * * * *
318802 TTTAATGATTTAATTTTAATGATTTAATAATTTAACTTTAATGATTTAATAATAATTACTTTAAT
1 TTTAATGATTTAATAATATTAATATAATGATTTAATTTTAATGATTTAATAATAATTACTTTAAT
318867 GATTTAACTTTAATGATTTAATAATAATTACTTTAATGA
66 GATTTAACTTTAATGATTTAATAATAATTACTTTAATGA
* *
318906 TTTAATGATTTAATGAT-TTAATAATAATTATTTTAATGATTTAATGATTTAATAATAATTACTT
1 TTTAATGATTTAATAATATTAAT-ATAATGA-TTTAAT--TTTAATGATTTAATAATAATTACTT
*
318970 TAATGATTTAACTTTAATGCTTTAATAATAATTACTTTAATGA
62 TAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGA
* * *
319013 TTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATAATTTAATAATAATTACTTAAT
1 TTTAATGATTTAATAAT-ATTAATATAATGATTTAATTTTAATGATTTAATAATAATTAC-----
* *
319078 TTTAATTATTTAATTTTAATGATTTAATAATAATTACTT
60 TTTAATGATTTAACTTTAATGATTTAATAATAATTACTT
319117 GACTTTAATG
Statistics
Matches: 184, Mismatches: 16, Indels: 16
0.85 0.07 0.07
Matches are distributed among these distances:
103 3 0.02
104 20 0.11
105 27 0.15
107 89 0.48
108 5 0.03
109 4 0.02
110 36 0.20
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (104 bp):
TTTAATGATTTAATAATATTAATATAATGATTTAATTTTAATGATTTAATAATAATTACTTTAAT
GATTTAACTTTAATGATTTAATAATAATTACTTTAATGA
Found at i:318986 original size:68 final size:68
Alignment explanation
Indices: 318802--319091 Score: 390
Period size: 68 Copynumber: 4.2 Consensus size: 68
318792 TAATAATTAC
** * *
318802 TTTAATGATTTAATTTTAATGA-TTTAATAATTTAACTTTAATGATTTAATAATAATTACTTTAA
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAA
318866 TGATTTAA
66 TG-----A
* *
318874 CTTTAATGATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATAATAATTATTT
1 -TTTAATGATTTAATAATAATTACTTTAATGATTTAA--CTTTAATGATTTAATAATAATTACTT
318939 TAATGA
63 TAATGA
*
318945 TTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGCTTTAATAATAATTACTTTAA
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAA
319010 TGA
66 TGA
* *
319013 TTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATAATTTAATAATAATTAC-TTAA
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAA
319077 T--
66 TGA
*
319078 TTTAATTATTTAAT
1 TTTAATGATTTAAT
319092 TTTAATGATT
Statistics
Matches: 201, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
65 13 0.06
67 5 0.02
68 86 0.43
70 36 0.18
71 1 0.00
73 19 0.09
74 12 0.06
76 29 0.14
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (68 bp):
TTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAA
TGA
Found at i:319151 original size:42 final size:42
Alignment explanation
Indices: 318726--319026 Score: 144
Period size: 37 Copynumber: 7.4 Consensus size: 42
318716 CTTAATAATT
*
318726 ACTTTAATGATTTAACTTTAATGATTTAATAAT-A--A-TT-
1 ACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTA
318763 ACTTTAATGATTTAATTTTAATGATTTAATAAT-A--A-TT-
1 ACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTA
318800 ACTTTAATGATTTAATTTTAATGA-TT--TAATAA-T--TTA
1 ACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTA
* * * * *
318836 ACTTTAATGATTTAA---TAAT-AATTACT-TTAATGATTTA
1 ACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTA
** * * * *
318873 ACTTTAATGATTTAATAATAATTACTTTAATGATTTAATGATTTA
1 ACTTTAATGATTTAATTTTAATGA-TTTAAT-A-ATAATTACTTA
* * * *
318918 ATGATTTAATAATAATT-ATTTTAATGATTTAATGATTTAATAATAATT-
1 A--CTTTAATGAT--TTAATTTTAATGATTTAAT-A-ATAAT--TACTTA
* *
318966 ACTTTAATGATTTAACTTTAATGCTTTAATAATAATTACTTTA
1 ACTTTAATGATTTAATTTTAATGATTTAATAATAATTAC-TTA
*
319009 ATGATTTAATGATTTAAT
1 A--CTTTAATGATTTAAT
319027 AATAATTACT
Statistics
Matches: 216, Mismatches: 20, Indels: 48
0.76 0.07 0.17
Matches are distributed among these distances:
32 1 0.00
33 6 0.03
34 7 0.03
35 4 0.02
36 17 0.08
37 78 0.36
40 4 0.02
41 3 0.01
42 6 0.03
43 5 0.02
44 3 0.01
45 39 0.18
46 8 0.04
47 22 0.10
48 8 0.04
49 5 0.02
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (42 bp):
ACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTA
Found at i:319616 original size:6 final size:6
Alignment explanation
Indices: 319605--319635 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
319595 GGTGAGAAGA
*
319605 ACTCCC ACTCCC ACTCCT ACTCCC ACTCCC A
1 ACTCCC ACTCCC ACTCCC ACTCCC ACTCCC A
319636 GTCCTTCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.19, C:0.61, G:0.00, T:0.19
Consensus pattern (6 bp):
ACTCCC
Found at i:319626 original size:18 final size:18
Alignment explanation
Indices: 319605--319640 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
319595 GGTGAGAAGA
319605 ACTCCCACTCCCACTCCT
1 ACTCCCACTCCCACTCCT
*
319623 ACTCCCACTCCCAGTCCT
1 ACTCCCACTCCCACTCCT
319641 TCTTGGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.58, G:0.03, T:0.22
Consensus pattern (18 bp):
ACTCCCACTCCCACTCCT
Found at i:321667 original size:172 final size:173
Alignment explanation
Indices: 321375--321733 Score: 560
Period size: 172 Copynumber: 2.1 Consensus size: 173
321365 CATCAAATAT
* *
321375 AAAATGATCCCTAATTAATATTTGCTTCTCAACATTTTCAAACTTTGCAATTTAATCACTAAATT
1 AAAACGATCCCTAATTAATATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
*
321440 TATAAATTCTTTCAAATTTAACCAATTAAGCATATTAATACTAAATTCAAGCATAGTATACCAAC
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
* * *
321505 TTTTTATAATTTACTCTAATTTCTTAAATTCCTCAAATTTTGC
131 TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
* * *
321548 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAAGTTAGCAATTTAATC-CATAAAT
1 AAAACGATCCCTAATTAATATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCAC-TAAAT
* * *
321612 TT-TAAATTCTTTCTAATTTAACCAATTAAGCATACTAATACTAAATTCCAGCATAGTATAGCAA
65 TTATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAA
* *
321676 CTTTTAATAATTTACTCTTATTCCTTAAATTCCTTAAATTTTAC
130 CTTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
*
321720 AAAACGGTCCCTAA
1 AAAACGATCCCTAA
321734 AACTTTAATA
Statistics
Matches: 170, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
172 111 0.65
173 59 0.35
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (173 bp):
AAAACGATCCCTAATTAATATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
Found at i:322221 original size:23 final size:23
Alignment explanation
Indices: 322195--322238 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
322185 AGTTGCATGC
322195 CCCCCACATGCAGACGTGCAGGA
1 CCCCCACATGCAGACGTGCAGGA
322218 CCCCCACATGCAGACGTGCAG
1 CCCCCACATGCAGACGTGCAG
322239 CCTTGCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.41, G:0.25, T:0.09
Consensus pattern (23 bp):
CCCCCACATGCAGACGTGCAGGA
Found at i:322299 original size:22 final size:22
Alignment explanation
Indices: 322268--322314 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
322258 CGTGATTTCT
*
322268 GTGCTTTCTCCTTGCAGAACCC
1 GTGCTCTCTCCTTGCAGAACCC
322290 GTGCTCTCTCCTTGCAGAACCC
1 GTGCTCTCTCCTTGCAGAACCC
322312 GTG
1 GTG
322315 ATTCTCACGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.13, C:0.36, G:0.21, T:0.30
Consensus pattern (22 bp):
GTGCTCTCTCCTTGCAGAACCC
Found at i:324095 original size:21 final size:21
Alignment explanation
Indices: 324071--324117 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
324061 ATGCGAATGT
324071 GAGCAAGCAGCAATGACATGA
1 GAGCAAGCAGCAATGACATGA
324092 GAGCAAGCAGCAATGACATGA
1 GAGCAAGCAGCAATGACATGA
324113 GAGCA
1 GAGCA
324118 TGGATATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.19, G:0.30, T:0.09
Consensus pattern (21 bp):
GAGCAAGCAGCAATGACATGA
Found at i:326668 original size:8 final size:8
Alignment explanation
Indices: 326655--326695 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
326645 CTCATTTTCA
326655 GAGAATTT
1 GAGAATTT
326663 GAGAATTT
1 GAGAATTT
*
326671 -AGAGTTT
1 GAGAATTT
*
326678 GGGAATTT
1 GAGAATTT
326686 GAGAATTT
1 GAGAATTT
326694 GA
1 GA
326696 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:326990 original size:128 final size:128
Alignment explanation
Indices: 326766--327261 Score: 885
Period size: 128 Copynumber: 3.9 Consensus size: 128
326756 TAATCGGAGT
* *
326766 ACTATTCATATGAAGACGCGTTCCC-GGGGCGCGCCTTCCATTA--TT-TCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
326827 CATTGCCCTATTATATCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
326890 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
*
326955 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAATACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
327018 AC-ATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
* *
327082 CATTGCCCTATTAAGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACATATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
327145 ACTATTCACATGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
327210 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
327262 AATCAGGTAA
Statistics
Matches: 356, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
124 23 0.06
125 18 0.05
127 125 0.35
128 190 0.53
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:327700 original size:34 final size:34
Alignment explanation
Indices: 327662--327762 Score: 148
Period size: 34 Copynumber: 3.0 Consensus size: 34
327652 AAATTTAGTG
*
327662 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
327696 TTAAATTTCGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
327730 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
327763 AACATTTATC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:328312 original size:21 final size:20
Alignment explanation
Indices: 328285--328375 Score: 101
Period size: 21 Copynumber: 4.3 Consensus size: 20
328275 GGTATAAAAC
*
328285 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
*
328305 CCTGGCGGGCAAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
* *
328326 CCTTGCAGGCTCGGAATGTAA
1 CC-TGCGGGCTAGGAATGTAA
*
328347 TCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
328368 CCCTGCGG
1 -CCTGCGG
328376 AGATGGCATA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
20 3 0.05
21 55 0.90
22 3 0.05
ACGTcount: A:0.21, C:0.25, G:0.34, T:0.20
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:328405 original size:21 final size:21
Alignment explanation
Indices: 328379--328426 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
328369 CCTGCGGAGA
*
328379 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
328400 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
328421 GGGCAT
1 TGGCAT
328427 GTACCCCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:330189 original size:34 final size:31
Alignment explanation
Indices: 330146--330234 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 31
330136 TTAATAATTC
*
330146 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
330180 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* *
330211 TATAAAAAATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
330235 AAAATACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 6 0.13
32 17 0.36
33 2 0.04
34 22 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:330191 original size:31 final size:33
Alignment explanation
Indices: 330149--330223 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 33
330139 ATAATTCTAA
* * *
330149 ATAAATAATAATTATATAAAT-ATTATTTTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
* *
330181 A-AAAAAATAA-TATTTACATAAATATATTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
330212 ATAAAAAATAAT
1 ATAAAAAATAAT
330224 AACTATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 7 0.20
31 18 0.51
32 10 0.29
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
ATAAAAAATAATTATATAAATAAATATATTAAT
Found at i:342502 original size:21 final size:21
Alignment explanation
Indices: 342452--342503 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
342442 TTCTGACTAC
*
342452 CGCATTGCGATTTTCCAAATT
1 CGCAATGCGATTTTCCAAATT
** *
342473 CGCGTTGCGATTTTCCTAATT
1 CGCAATGCGATTTTCCAAATT
*
342494 TGCAATGCGA
1 CGCAATGCGA
342504 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (21 bp):
CGCAATGCGATTTTCCAAATT
Found at i:342561 original size:20 final size:20
Alignment explanation
Indices: 342495--342564 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
342485 TTCCTAATTT
*
342495 GCAATGCGAATACGTAAATC
1 GCAATGCGATTACGTAAATC
* ** *
342515 GCAACGCGAATTTGGAAAATC
1 GCAATGCG-ATTACGTAAATC
*
342536 GTAATGCGATTACGTAAATC
1 GCAATGCGATTACGTAAATC
*
342556 ACAATGCGA
1 GCAATGCGA
342565 AACTGACTAT
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
20 23 0.62
21 14 0.38
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (20 bp):
GCAATGCGATTACGTAAATC
Found at i:343104 original size:17 final size:16
Alignment explanation
Indices: 343082--343115 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
343072 TAAAGACAGT
343082 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
343099 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
343115 A
1 A
343116 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:353299 original size:17 final size:16
Alignment explanation
Indices: 353277--353310 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
353267 TAAAGACATT
353277 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
353294 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
353310 A
1 A
353311 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:354686 original size:22 final size:22
Alignment explanation
Indices: 354658--354719 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
354648 ACATCCGTCT
354658 CCATCTCCGATGAAATCAGTCC
1 CCATCTCCGATGAAATCAGTCC
* *
354680 CCATCTCCGATGATATCAGTCT
1 CCATCTCCGATGAAATCAGTCC
354702 CCATCTCCGATGAAATCA
1 CCATCTCCGATGAAATCA
354720 TTCACGGTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.27, C:0.34, G:0.13, T:0.26
Consensus pattern (22 bp):
CCATCTCCGATGAAATCAGTCC
Found at i:355172 original size:20 final size:20
Alignment explanation
Indices: 355056--355165 Score: 132
Period size: 20 Copynumber: 5.5 Consensus size: 20
355046 CGATTCCGTC
*
355056 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
* ** ** *
355075 ATTGCGATAGTCAAATTCGC
1 GTTGCGATTTTCATTTTCGT
**
355095 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
355115 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
355135 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
355155 GTTGCGATTTT
1 GTTGCGATTTT
355166 AAGTTTCAGA
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
19 10 0.12
20 70 0.88
ACGTcount: A:0.15, C:0.16, G:0.22, T:0.47
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:357067 original size:20 final size:20
Alignment explanation
Indices: 357042--357093 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
357032 AGAATAGTTT
*
357042 ACTATCGCAATGCGAAAATG
1 ACTATCGCAACGCGAAAATG
357062 ACTATCGCAACGCGAAAATG
1 ACTATCGCAACGCGAAAATG
*
357082 ACTATTGCAACG
1 ACTATCGCAACG
357094 AGAGAATCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (20 bp):
ACTATCGCAACGCGAAAATG
Found at i:357166 original size:20 final size:20
Alignment explanation
Indices: 357138--357224 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
357128 GATTCTCTCG
* *
357138 TTGCAATAGTCAAATTCGCA
1 TTGCGATAGTCAATTTCGCA
*
357158 TTGCGATAGT-AATTTTTGCA
1 TTGCGATAGTCAA-TTTCGCA
* *
357178 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAATTTCGCA
* *
357198 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAATTTCGCA
357218 TTGCGAT
1 TTGCGAT
357225 TTTAAGTTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
19 2 0.03
20 56 0.95
21 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCAATTTCGCA
Found at i:357202 original size:40 final size:40
Alignment explanation
Indices: 357138--357224 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
357128 GATTCTCTCG
* *
357138 TTGCAATAGTCAAATTCGCATTGCGATAGTAATTTTTGCA
1 TTGCGATAGTCAAATTCGCATTGCGATAGTAATTTTCGCA
** * * *
357178 TTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCATTGCGATAGTAATTTTCGCA
357218 TTGCGAT
1 TTGCGAT
357225 TTTAAGTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (40 bp):
TTGCGATAGTCAAATTCGCATTGCGATAGTAATTTTCGCA
Found at i:357234 original size:20 final size:20
Alignment explanation
Indices: 357152--357234 Score: 76
Period size: 20 Copynumber: 4.2 Consensus size: 20
357142 AATAGTCAAA
* *
357152 TTCGCATTGCGATAGTAATT
1 TTCGCGTTGCGATAGTAAGT
* * * *
357172 TTTGCATTGCGATAGTCATT
1 TTCGCGTTGCGATAGTAAGT
* *
357192 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTAAGT
**
357212 TTCGCGTTGCGATTTTAAGT
1 TTCGCGTTGCGATAGTAAGT
357232 TTC
1 TTC
357235 AGATTCTATT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTAAGT
Found at i:357749 original size:18 final size:19
Alignment explanation
Indices: 357710--357751 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
357700 CTCACCTATC
357710 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
357731 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
357749 ATC
1 ATC
357752 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:357805 original size:42 final size:42
Alignment explanation
Indices: 357734--357813 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
357724 CTCCCCTATC
357734 GTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCTCCTCCCACT
1 GTTCAAGAGGCCCCTATCATCCCTCAAGAGGTC-CCTCCCACT
* * ** *
357776 GTTCAAGAGGCCGCTGTCATCGTTGAAGAGGTCCCTCC
1 GTTCAAGAGGCCCCTATCATCCCTCAAGAGGTCCCTCC
357814 AACATTCTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 29 0.91
43 3 0.09
ACGTcount: A:0.20, C:0.35, G:0.21, T:0.24
Consensus pattern (42 bp):
GTTCAAGAGGCCCCTATCATCCCTCAAGAGGTCCCTCCCACT
Found at i:359216 original size:14 final size:14
Alignment explanation
Indices: 359197--359232 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
359187 ATTGTTTAAT
359197 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
359211 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
359225 TGATTTGT
1 TGATTTGT
359233 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:359395 original size:33 final size:33
Alignment explanation
Indices: 359338--359433 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
359328 AAAACAGACT
* **
359338 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
* *
359372 ATTGCAATGCGAAATGAAAATCGCAACTAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
359405 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
359434 CGAAACTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 30 0.56
34 24 0.44
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:359473 original size:20 final size:19
Alignment explanation
Indices: 359444--359510 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
359434 CGAAACTAAA
*
359444 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCA-T
359464 TTCGCATTGCGA--TTCA-
1 TTCGCATTGCGATTTTCAT
*
359480 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
359497 TTCGCATTGCGATT
1 TTCGCATTGCGATT
359511 CTCTCGTTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
14 6 0.15
16 7 0.18
17 3 0.08
18 4 0.10
19 8 0.21
20 11 0.28
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:359491 original size:34 final size:34
Alignment explanation
Indices: 359448--359543 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
359438 ACTAAATTCG
359448 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
359482 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
359515 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
359544 AGTCAATTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:359540 original size:20 final size:20
Alignment explanation
Indices: 359515--359603 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
359505 GCGATTCTCT
359515 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
359535 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
359555 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
359575 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
359595 CGTTGCGAT
1 CGTTGCGAT
359604 TTCCGCGTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 62 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:362964 original size:20 final size:20
Alignment explanation
Indices: 362917--362964 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
362907 AAATTCAGTA
*
362917 TTGCGATAGTCAGAATCTCG
1 TTGCGATTGTCAGAATCTCG
362937 TTGCGATTGTCAGAATCTCG
1 TTGCGATTGTCAGAATCTCG
362957 TTGCGATT
1 TTGCGATT
362965 TACAGATTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (20 bp):
TTGCGATTGTCAGAATCTCG
Found at i:362970 original size:20 final size:20
Alignment explanation
Indices: 362927--363066 Score: 124
Period size: 20 Copynumber: 7.0 Consensus size: 20
362917 TTGCGATAGT
*
362927 CAGAATCTCGTTGCGATTGT-
1 CAGAATCGCGTTGCGATT-TA
*
362947 CAGAATCTCGTTGCGATTTA
1 CAGAATCGCGTTGCGATTTA
* *
362967 CAGATTCGCGTTGTGATTTA
1 CAGAATCGCGTTGCGATTTA
* * *
362987 CATATTCGCATTGCGATTTA
1 CAGAATCGCGTTGCGATTTA
* *
363007 C-GTAATCGCATTGCGATTTT
1 CAG-AATCGCGTTGCGATTTA
*
363027 CCGAATTCGCGTTGCGATTTA
1 CAGAA-TCGCGTTGCGATTTA
*
363048 C-GTATTCGCGTTGCGATTT
1 CAG-AATCGCGTTGCGATTT
363067 CGCATTGCGA
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.01
20 86 0.83
21 16 0.16
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (20 bp):
CAGAATCGCGTTGCGATTTA
Found at i:378027 original size:22 final size:23
Alignment explanation
Indices: 378001--378061 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
377991 AGAACCCCAG
378001 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTCAAA
378024 GGGGGAATCGGTTCCCCTTC-AA
1 GGGGGAATCGGTTCCCCTTCAAA
* *
378046 GGGGGTATCGATTCCC
1 GGGGGAATCGGTTCCC
378062 TCTGTACTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.18, C:0.26, G:0.33, T:0.23
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTCAAA
Found at i:387324 original size:2 final size:2
Alignment explanation
Indices: 387314--387464 Score: 74
Period size: 2 Copynumber: 78.5 Consensus size: 2
387304 ATTGAAAAAA
*
387314 AT AT A- AT AT AT AT AT AT AT AT AT AT -T AT A- AGT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * *
387354 AA ACT AT AT AT AT AA AT -T AT AT AT AT AT -T AT AA ACT AT AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* *
387396 -T AT A- AGT -T AT AT AT AT A- AT -T AT GT TT AT A- ACT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * * *
387434 AT AA ACT AT AT AT GT AA AT -T AT AT AT GT AT A
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A
387465 AACTATAAAA
Statistics
Matches: 112, Mismatches: 19, Indels: 36
0.67 0.11 0.22
Matches are distributed among these distances:
1 12 0.11
2 96 0.86
3 4 0.04
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:387387 original size:18 final size:17
Alignment explanation
Indices: 387322--387399 Score: 65
Period size: 19 Copynumber: 4.7 Consensus size: 17
387312 AAATATAATA
* *
387322 TATATATATATATATAT
1 TATATATATATATAAAC
*
387339 TATAAGTTTATATATAAAC
1 TAT-A-TATATATATAAAC
* *
387358 TATATATATAAAT-TA-
1 TATATATATATATAAAC
387373 TATATATAT-TATAAAC
1 TATATATATATATAAAC
387389 TATATAT-TATA
1 TATATATATATA
387400 AGTTATATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
14 2 0.04
15 11 0.23
16 10 0.21
17 10 0.21
18 2 0.04
19 13 0.27
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (17 bp):
TATATATATATATAAAC
Found at i:387471 original size:13 final size:13
Alignment explanation
Indices: 387319--387471 Score: 96
Period size: 13 Copynumber: 11.2 Consensus size: 13
387309 AAAAAATATA
*
387319 ATATATATATA-T
1 ATATATATAAACT
*
387331 ATATATATTATAAGT
1 ATATATA-TA-AACT
*
387346 TTATATATAAACT
1 ATATATATAAACT
*
387359 ATATATATAAATTATAT
1 ATATATAT-AA--A-CT
387376 ATATATTATAAACT
1 ATATA-TATAAACT
**
387390 ATATATTATAAGTT
1 ATATA-TATAAACT
*
387404 ATATATAT-AATT
1 ATATATATAAACT
* *
387416 ATGTTTAT-AACT
1 ATATATATAAACT
387428 ATATATATAAACT
1 ATATATATAAACT
* *
387441 ATATATGTAAATT
1 ATATATATAAACT
387454 ATATATGTATAAACT
1 ATATA--TATAAACT
387469 ATA
1 ATA
387472 AAAAGTTTAT
Statistics
Matches: 112, Mismatches: 18, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
12 25 0.22
13 35 0.31
14 23 0.21
15 17 0.15
16 1 0.01
17 8 0.07
18 3 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (13 bp):
ATATATATAAACT
Found at i:387658 original size:19 final size:18
Alignment explanation
Indices: 387636--387722 Score: 120
Period size: 20 Copynumber: 4.5 Consensus size: 18
387626 GAGAATATAA
387636 GGAAATTGATAATTTAGAG
1 GGAAATTGA-AATTTAGAG
387655 GGAAATTGATAATTTAGAG
1 GGAAATTGA-AATTTAGAG
387674 GGAAATTGGGAAATTTAGAG
1 GGAAATT--GAAATTTAGAG
387694 GGAAATTGGGAAATTTAGAG
1 GGAAATT--GAAATTTAGAG
387714 GGAAATTGA
1 GGAAATTGA
387723 GTTTTTATCG
Statistics
Matches: 66, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
18 2 0.03
19 26 0.39
20 36 0.55
21 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (18 bp):
GGAAATTGAAATTTAGAG
Found at i:387680 original size:12 final size:12
Alignment explanation
Indices: 387665--387720 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
387655 GGAAATTGAT
387665 AATTTAGAGGGA
1 AATTTAGAGGGA
387677 AA-TT---GGGA
1 AATTTAGAGGGA
387685 AATTTAGAGGGA
1 AATTTAGAGGGA
387697 AA-TT---GGGA
1 AATTTAGAGGGA
387705 AATTTAGAGGGA
1 AATTTAGAGGGA
387717 AATT
1 AATT
387721 GAGTTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 16
0.69 0.00 0.31
Matches are distributed among these distances:
8 12 0.33
9 4 0.11
11 4 0.11
12 16 0.44
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.27
Consensus pattern (12 bp):
AATTTAGAGGGA
Found at i:387690 original size:20 final size:20
Alignment explanation
Indices: 387646--387721 Score: 129
Period size: 20 Copynumber: 3.9 Consensus size: 20
387636 GGAAATTGAT
387646 AATTTAGAGGGAAATT--GA
1 AATTTAGAGGGAAATTGGGA
387664 TAATTTAGAGGGAAATTGGGA
1 -AATTTAGAGGGAAATTGGGA
387685 AATTTAGAGGGAAATTGGGA
1 AATTTAGAGGGAAATTGGGA
387705 AATTTAGAGGGAAATTG
1 AATTTAGAGGGAAATTG
387722 AGTTTTTATC
Statistics
Matches: 55, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.29
20 37 0.67
21 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.28
Consensus pattern (20 bp):
AATTTAGAGGGAAATTGGGA
Found at i:387928 original size:4 final size:4
Alignment explanation
Indices: 387921--388003 Score: 157
Period size: 4 Copynumber: 20.8 Consensus size: 4
387911 TATATATATA
387921 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
387969 TATG TATG TATG TATG TATG TATG AATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
388004 AAACTATATA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 77 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:388049 original size:2 final size:2
Alignment explanation
Indices: 388036--388118 Score: 79
Period size: 2 Copynumber: 43.5 Consensus size: 2
388026 TAATTTATTA
* *
388036 AT AT AGT AT AT AT AT GT AT A- AT A- AGT AT A- AT A- AT -T AT AG
1 AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
*
388075 AT AT AT AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
388116 AT A
1 AT A
388119 GAAACACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
1 6 0.09
2 58 0.87
3 3 0.04
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (2 bp):
AT
Found at i:388177 original size:7 final size:7
Alignment explanation
Indices: 388167--388240 Score: 53
Period size: 7 Copynumber: 10.6 Consensus size: 7
388157 ATAGTTTATA
388167 AAACCCT
1 AAACCCT
388174 AAACCCT
1 AAACCCT
388181 AAACCCT
1 AAACCCT
***
388188 AAATTGT
1 AAACCCT
*
388195 GAACCCT
1 AAACCCT
388202 AAA--CT
1 AAACCCT
*
388207 AGTAACCTT
1 A--AACCCT
*
388216 AAACTCT
1 AAACCCT
388223 AAACCCT
1 AAACCCT
*
388230 AACCCCT
1 AAACCCT
388237 AAAC
1 AAAC
388241 TATATATATA
Statistics
Matches: 49, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
5 3 0.06
7 44 0.90
9 2 0.04
ACGTcount: A:0.42, C:0.34, G:0.04, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:388305 original size:15 final size:15
Alignment explanation
Indices: 388280--388358 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
388270 ATAAATCATG
388280 TATAGTATATATAAAC
1 TATA-TATATATAAAC
388296 TATATATATAT--A-
1 TATATATATATAAAC
** *
388308 TATACCCTATATATA-
1 TATA-TATATATAAAC
*
388323 TATATATATATAACC
1 TATATATATATAAAC
*
388338 TATATATATATAAGC
1 TATATATATATAAAC
388353 TATATA
1 TATATA
388359 AAGTAAATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
12 4 0.08
13 6 0.12
14 6 0.12
15 32 0.62
16 4 0.08
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.42
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:388309 original size:19 final size:19
Alignment explanation
Indices: 388280--388358 Score: 81
Period size: 19 Copynumber: 4.1 Consensus size: 19
388270 ATAAATCATG
388280 TATAGTATATATAAACTATA
1 TATA-TATATATAAACTATA
**
388300 TATATATATATACCCTATA
1 TATATATATATAAACTATA
*
388319 TATATATATATATA-TA-A
1 TATATATATATAAACTATA
*
388336 CCTATATATATATAAGCTATA
1 --TATATATATATAAACTATA
388357 TA
1 TA
388359 AAGTAAATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
17 1 0.02
18 2 0.04
19 39 0.80
20 6 0.12
21 1 0.02
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.42
Consensus pattern (19 bp):
TATATATATATAAACTATA
Found at i:388322 original size:23 final size:23
Alignment explanation
Indices: 388296--388349 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
388286 ATATATAAAC
*
388296 TATATATATATATATACCCTATA
1 TATATATATATATATAACCTATA
388319 TATATATATATATATAACCTATA
1 TATATATATATATATAACCTATA
388342 TATATATA
1 TATATATA
388350 AGCTATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.44
Consensus pattern (23 bp):
TATATATATATATATAACCTATA
Found at i:388358 original size:2 final size:2
Alignment explanation
Indices: 388280--388349 Score: 61
Period size: 2 Copynumber: 34.0 Consensus size: 2
388270 ATAAATCATG
* **
388280 TA TA GTA TA TA TA AA CTA TA TA TA TA TA TA TA CCC TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA
**
388323 TA TA TA TA TA TA -A CC TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
388350 AGCTATATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
1 1 0.02
2 51 0.93
3 3 0.05
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (2 bp):
TA
Found at i:388446 original size:7 final size:7
Alignment explanation
Indices: 388434--388491 Score: 71
Period size: 7 Copynumber: 8.3 Consensus size: 7
388424 AGGTTTATAG
388434 AAACCCT
1 AAACCCT
388441 AAACCCT
1 AAACCCT
388448 AAACCCT
1 AAACCCT
**
388455 AAACTTT
1 AAACCCT
*
388462 AAACCAT
1 AAACCCT
*
388469 AAACACT
1 AAACCCT
*
388476 AAACCAT
1 AAACCCT
388483 AAACCCT
1 AAACCCT
388490 AA
1 AA
388492 TATAAATAGA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:389332 original size:533 final size:527
Alignment explanation
Indices: 388317--389497 Score: 1772
Period size: 533 Copynumber: 2.2 Consensus size: 527
388307 ATATACCCTA
* *
388317 TATATATATATATATATAACCTATATATATATAAGCTATATAAAGTAAATTACTTATATAGTTTA
1 TATATATATATATATATAACCTCTATATATATAAACTATATAAAGTAAATTACTTATATAGTTTA
* *
388382 TAGAAATACTATGCATAAACTATATAAAGTAACAAAGTATATAGGTTTATAGAAACCCTAAACCC
66 TAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATATA-GTTTATAGAAACCCTAAA--C
*
388447 TAAACCCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATATAAATAGACTAGCACTAA
128 T--A-CATAAAC--T--ACCATAAACACTAAACCATAAACCCTAATATAAATAGACTAGCACTAA
388512 TGCATATATATTTGTAATAAAAGAGTGAGCTTATATATTAGGCCTATGTAAACTAATGGACTAAC
186 TGCATATATATTTGTAATAAAAGAGTGAGCTTATATATTAGGCCTATGTAAACTAATGGACTAAC
* * *
388577 ACTATTGCAAATTGACTTATTTTTTTGTTTTATTATTTCTTATTCATAACAACAAAATAAATGGA
251 ACTATTGCAAATTGACTTATTTTTTAGTCTTATTATTACTTATTCATAACAACAAAATAAATGGA
* *
388642 CTTTTAATGTGAATTAACCTAATATGCAACTAAAATACTAATTATGCAAATGAAATTAATATGAC
316 CTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATGAC
*
388707 ATGTACTACTATTTATGAACCATATAATATGCAACGTGACATACTAATTATTTAACACCTAATTA
381 ATGTACTACTATTTATGAACCATATAATATGCAACATGACATACTAATTATTTAACACCTAATTA
388772 ATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATA
446 ATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATA
*
388837 TGTATGTATAAACCATG
511 TGTATGTATAAAACATG
*
388854 TATAGTATATATATATATAACCTCTCTCTATATATATAAACTATATAAAGTATATTACTTATATA
1 TATA-TATATATATATATAA---C-CTCTATATATATAAACTATATAAAGTAAATTACTTATATA
*
388919 GTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAA
61 GTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATATAGTTTATAGAAACCCTAA
*
388984 A-T-CATAAAC-A-C-TAAACACTAAACTATAAACCCTAATATAAAT-GAACTAGCACTAATGCA
126 ACTACATAAACTACCATAAACACTAAACCATAAACCCTAATATAAATAG-ACTAGCACTAATGCA
* * * *
389043 TATATATTTGTAATAAAAGAGTGGGTTTATGTATTGGGCCTATGTAAACTAATGTAAATGGACTA
190 TATATATTTGTAATAAAAGAGTGAGCTTATATATTAGGCCTATGTAAAC-----T-AATGGACTA
* *
389108 TCACTATTGCAAATTGACTTATTTTTTAGTCTTATTATTACTTATTCATAACAACAAAATAATTG
249 ACACTATTGCAAATTGACTTATTTTTTAGTCTTATTATTACTTATTCATAACAACAAAATAAATG
* *
389173 GGCTATTAATGTGAATTAACCTGACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATG
314 GACTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATG
*
389238 ACATGTACTACTATTTATGAACCATATAATATGCAATATGACATACTAATTATTTAACACCTAAT
379 ACATGTACTACTATTTATGAACCATATAATATGCAACATGACATACTAATTATTTAACACCTAAT
*
389303 TAATCATGTTTTATATAATTTATATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAA
444 TAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAA
389368 TATGTATGTATAAAACATG
509 TATGTATGTATAAAACATG
*
389387 --TAT-TATATATATAT-A---C-------ATAAACTATATAAAATAAATTACTTATATAGTTTA
1 TATATATATATATATATAACCTCTATATATATAAACTATATAAAGTAAATTACTTATATAGTTTA
* *
389438 TAGAAACACTATGCATAAACTATATAAAGTACTAAAGTATATAGTTTATAAAAACCCTAA
66 TAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATATAGTTTATAGAAACCCTAA
389498 GTTCTAAATC
Statistics
Matches: 602, Mismatches: 30, Indels: 47
0.89 0.04 0.07
Matches are distributed among these distances:
514 90 0.15
521 1 0.00
526 1 0.00
527 90 0.15
528 2 0.00
529 12 0.02
530 1 0.00
531 2 0.00
532 1 0.00
533 275 0.46
534 6 0.01
537 4 0.01
538 16 0.03
541 19 0.03
542 82 0.14
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (527 bp):
TATATATATATATATATAACCTCTATATATATAAACTATATAAAGTAAATTACTTATATAGTTTA
TAGAAACACTATGCATAAACTATATAAAGTAATAAAGTATATAGTTTATAGAAACCCTAAACTAC
ATAAACTACCATAAACACTAAACCATAAACCCTAATATAAATAGACTAGCACTAATGCATATATA
TTTGTAATAAAAGAGTGAGCTTATATATTAGGCCTATGTAAACTAATGGACTAACACTATTGCAA
ATTGACTTATTTTTTAGTCTTATTATTACTTATTCATAACAACAAAATAAATGGACTATTAATGT
GAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATGACATGTACTACT
ATTTATGAACCATATAATATGCAACATGACATACTAATTATTTAACACCTAATTAATCATGTTTT
ATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATATGTATGTATA
AAACATG
Found at i:389526 original size:21 final size:20
Alignment explanation
Indices: 389501--389563 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
389491 ACCCTAAGTT
*
389501 CTAAATCATAAATCATAAACC
1 CTAAA-CATAAACCATAAACC
* *
389522 CTAAACTTTAAACCATAAACA
1 CTAAAC-ATAAACCATAAACC
389543 CTAAACACTAAACCATAAACC
1 CTAAACA-TAAACCATAAACC
389564 ATAATGTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (20 bp):
CTAAACATAAACCATAAACC
Found at i:389564 original size:7 final size:7
Alignment explanation
Indices: 389502--389567 Score: 55
Period size: 7 Copynumber: 9.4 Consensus size: 7
389492 CCCTAAGTTC
*
389502 TAAATCA
1 TAAACCA
*
389509 TAAATCA
1 TAAACCA
*
389516 TAAACCC
1 TAAACCA
**
389523 TAAACTT
1 TAAACCA
389530 TAAACCA
1 TAAACCA
389537 TAAA-CA
1 TAAACCA
389543 CTAAA-CA
1 -TAAACCA
389550 CTAAACCA
1 -TAAACCA
389558 TAAACCA
1 TAAACCA
389565 TAA
1 TAA
389568 TGTAAATAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
6 2 0.04
7 47 0.92
8 2 0.04
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:391900 original size:37 final size:37
Alignment explanation
Indices: 391827--391901 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 37
391817 GTTAGAAAAT
*
391827 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTTAAAATCATAAA
*
391864 ATTTATATAATTTTTTTTACAAAAA-TTAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTA-AAAAATTTAAAATCATAAA
391901 A
1 A
391902 AGGTTTAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 14 0.41
38 15 0.44
39 5 0.15
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTTAAAATCATAAA
Found at i:394084 original size:23 final size:21
Alignment explanation
Indices: 394057--394102 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
394047 TTGTATGATA
*
394057 TTAAATTTTTATATATTTTTTAT
1 TTAAATATTT-TA-ATTTTTTAT
394080 TTAAATATTTTAATTTTTTAT
1 TTAAATATTTTAATTTTTTAT
394101 TT
1 TT
394103 TAAACTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.50
22 2 0.09
23 9 0.41
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTAAATATTTTAATTTTTTAT
Found at i:396879 original size:20 final size:20
Alignment explanation
Indices: 396856--396985 Score: 163
Period size: 20 Copynumber: 6.4 Consensus size: 20
396846 ATTATGTAAA
396856 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
396876 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* * *
396896 TCACAATACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
396916 TCGCAACACAGAAGTTAAAT
1 TCGCAACACAGAAGTCAAAT
*
396936 TCGCAACACTA-AATTTCAAAT
1 TCGCAACAC-AGAA-GTCAAAT
* *
396957 TCGCAACACTGAATTTCAAAT
1 TCGCAACACAGAA-GTCAAAT
396978 TCGCAACA
1 TCGCAACA
396986 TGAATTTAAT
Statistics
Matches: 97, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
20 64 0.66
21 33 0.34
ACGTcount: A:0.45, C:0.24, G:0.11, T:0.21
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:396991 original size:20 final size:21
Alignment explanation
Indices: 396856--397004 Score: 139
Period size: 20 Copynumber: 7.4 Consensus size: 21
396846 ATTATGTAAA
* *
396856 TCGCAACACAGAA-GTCAAAT
1 TCGCAACACTGAATTTCAAAT
* *
396876 TCGCAACACAGAA-GTCAAAT
1 TCGCAACACTGAATTTCAAAT
* * * **
396896 TCACAATAC-AAAAGTCAAAT
1 TCGCAACACTGAATTTCAAAT
* *
396916 TCGCAACACAGAAGTT-AAAT
1 TCGCAACACTGAATTTCAAAT
*
396936 TCGCAACACTAAATTTCAAAT
1 TCGCAACACTGAATTTCAAAT
396957 TCGCAACACTGAATTTCAAAT
1 TCGCAACACTGAATTTCAAAT
*
396978 TCGCAACA-TGAATTT-AATT
1 TCGCAACACTGAATTTCAAAT
396997 TCGCAACA
1 TCGCAACA
397005 GGTTTTAGTT
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.12
20 65 0.58
21 35 0.31
ACGTcount: A:0.44, C:0.23, G:0.11, T:0.23
Consensus pattern (21 bp):
TCGCAACACTGAATTTCAAAT
Found at i:397991 original size:24 final size:24
Alignment explanation
Indices: 397933--397979 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
397923 ACTCAGTATT
*
397933 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
397957 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
397980 TCGGATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:400290 original size:18 final size:18
Alignment explanation
Indices: 400256--400291 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
400246 AAGCAAAAGG
**
400256 AAATCAAAATCGTAATCA
1 AAATCAAAATCCCAATCA
400274 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
400292 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:400589 original size:20 final size:20
Alignment explanation
Indices: 400545--400590 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
400535 TGCGATTGTT
* *
400545 GCGAAAGTCAAATTCGCAAC
1 GCGAAAGTCAAAATCGAAAC
400565 GCGAAAGTCAAAATCGTAAAC
1 GCGAAAGTCAAAATCG-AAAC
400586 -CGAAA
1 GCGAAA
400591 ATCGCAACGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.13
Consensus pattern (20 bp):
GCGAAAGTCAAAATCGAAAC
Found at i:400625 original size:20 final size:20
Alignment explanation
Indices: 400602--400655 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
400592 TCGCAACGCA
400602 AATTTGACTTTCGCGTTGCG
1 AATTTGACTTTCGCGTTGCG
* **
400622 AATTTAACTTTAACGTTGCG
1 AATTTGACTTTCGCGTTGCG
*
400642 AATTTGACTATCGC
1 AATTTGACTTTCGC
400656 AACGCGAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (20 bp):
AATTTGACTTTCGCGTTGCG
Found at i:400686 original size:54 final size:54
Alignment explanation
Indices: 400618--400751 Score: 205
Period size: 54 Copynumber: 2.5 Consensus size: 54
400608 ACTTTCGCGT
* ** * *
400618 TGCGAATTTAACTTTAACGTTGCGAATTTGACTATCGCAACGCGAAAATCGCAA
1 TGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCACAACGAGAAAATCGCAA
*
400672 TGCGAATTTGACTTTCGCGTTGTGAATTTGACTATCACAACGAGAAAATCGCAA
1 TGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCACAACGAGAAAATCGCAA
*
400726 CGCGAATTTGACTTTCGCGTTGCGAA
1 TGCGAATTTGACTTTCGCGTTGCGAA
400752 AGTGTACATT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (54 bp):
TGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCACAACGAGAAAATCGCAA
Found at i:402334 original size:21 final size:21
Alignment explanation
Indices: 402308--402354 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
402298 GTGAATCGGG
*
402308 CTCTTGAACGGCGGGTGGGAC
1 CTCTTGAACGGCGGGAGGGAC
* *
402329 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGCGGGAGGGAC
402350 CTCTT
1 CTCTT
402355 CGATGATGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.23, G:0.40, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGGCGGGAGGGAC
Found at i:402388 original size:21 final size:20
Alignment explanation
Indices: 402328--402404 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 20
402318 GCGGGTGGGA
*
402328 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGAT-GGAGGGG
*
402349 CCTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAACGATG-GAGGGG
*
402370 CCTCTTGAACGATAGGAGGCG
1 CCTCTTGAACGAT-GGAGGGG
402391 CCTCTTGAACGATG
1 CCTCTTGAACGATG
402405 ATAGGTGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
20 3 0.06
21 43 0.90
22 2 0.04
ACGTcount: A:0.19, C:0.22, G:0.36, T:0.22
Consensus pattern (20 bp):
CCTCTTGAACGATGGAGGGG
Found at i:404524 original size:20 final size:20
Alignment explanation
Indices: 404496--404603 Score: 126
Period size: 20 Copynumber: 5.3 Consensus size: 20
404486 CTTAAATTCG
404496 CGCGAAAATGAAAATCGCAA
1 CGCGAAAATGAAAATCGCAA
* *
404516 CGTGAAAATAAAAATCGCAA
1 CGCGAAAATGAAAATCGCAA
* * * *
404536 CGCGAAAATTAAAATTGTAT
1 CGCGAAAATGAAAATCGCAA
*
404556 CGCGAAAATTAAAATCGCAA
1 CGCGAAAATGAAAATCGCAA
*
404576 CGCGAAACTAGAAAATCGCAA
1 CGCGAAAAT-GAAAATCGCAA
*
404597 CACGAAA
1 CGCGAAA
404604 CTAAAATATC
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
20 58 0.78
21 16 0.22
ACGTcount: A:0.50, C:0.19, G:0.17, T:0.15
Consensus pattern (20 bp):
CGCGAAAATGAAAATCGCAA
Found at i:404540 original size:40 final size:40
Alignment explanation
Indices: 404496--404614 Score: 139
Period size: 40 Copynumber: 2.9 Consensus size: 40
404486 CTTAAATTCG
*
404496 CGCGAAAATGAAAATCGCAACGTGAAAATAAAAATCGCAA
1 CGCGAAAATGAAAATCGCAACGCGAAAATAAAAATCGCAA
* * * * *
404536 CGCGAAAATTAAAATTGTATCGCGAAAATTAAAATCGCAA
1 CGCGAAAATGAAAATCGCAACGCGAAAATAAAAATCGCAA
* * *
404576 CGCGAAACTAGAAAATCGCAACACGAAACTAAAATATCG
1 CGCGAAAAT-GAAAATCGCAACGCGAAAATAAAA-ATCG
404615 TTGCGATTTT
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
40 42 0.67
41 17 0.27
42 4 0.06
ACGTcount: A:0.50, C:0.18, G:0.16, T:0.16
Consensus pattern (40 bp):
CGCGAAAATGAAAATCGCAACGCGAAAATAAAAATCGCAA
Found at i:404609 original size:60 final size:60
Alignment explanation
Indices: 404496--404610 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
404486 CTTAAATTCG
* * *
404496 CGCGAAAATGAAAATCGCAACGTGAAAATAAAAATCGCAACGCGAAAATTAAAATTGTAT
1 CGCGAAAATGAAAATCGCAACGCGAAAATAAAAATCGCAACACGAAAACTAAAATTGTAT
* *
404556 CGCGAAAATTAAAATCGCAACGCGAAACTAGAAAATCGCAACACG-AAACTAAAAT
1 CGCGAAAATGAAAATCGCAACGCGAAAATA-AAAATCGCAACACGAAAACTAAAAT
404611 ATCGTTGCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
60 36 0.73
61 13 0.27
ACGTcount: A:0.50, C:0.18, G:0.16, T:0.16
Consensus pattern (60 bp):
CGCGAAAATGAAAATCGCAACGCGAAAATAAAAATCGCAACACGAAAACTAAAATTGTAT
Found at i:404672 original size:20 final size:20
Alignment explanation
Indices: 404614--404684 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
404604 CTAAAATATC
* **
404614 GTTGCGATTTTCATTTTCAC
1 GTTGCAATTTTCATTTTCGT
* *
404634 GTTGCGATTTTCATATTCGT
1 GTTGCAATTTTCATTTTCGT
*
404654 GCTGCAATTTTCATTTTCGT
1 GTTGCAATTTTCATTTTCGT
404674 GTTGCGAATTT
1 GTTGC-AATTT
404685 ATGTTTCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
20 38 0.88
21 5 0.12
ACGTcount: A:0.15, C:0.17, G:0.18, T:0.49
Consensus pattern (20 bp):
GTTGCAATTTTCATTTTCGT
Found at i:405021 original size:22 final size:22
Alignment explanation
Indices: 404995--405037 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
404985 GAGATAGATG
*
404995 GATTTTGTCAGAGATGGGGACA
1 GATTTCGTCAGAGATGGGGACA
*
405017 GATTTCGTCGGAGATGGGGAC
1 GATTTCGTCAGAGATGGGGAC
405038 GGATGTCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.26
Consensus pattern (22 bp):
GATTTCGTCAGAGATGGGGACA
Found at i:405219 original size:20 final size:20
Alignment explanation
Indices: 405194--405259 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
405184 TAAACGCGCT
405194 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTATGTG
*
405214 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTATGTG
* *
405234 TTGCAAATTTGACTTCTGTG
1 TTGCGAATTTGACTTATGTG
405254 TTGCGA
1 TTGCGA
405260 TTTATAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.45
Consensus pattern (20 bp):
TTGCGAATTTGACTTATGTG
Found at i:405290 original size:18 final size:19
Alignment explanation
Indices: 405253--405295 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
405243 TGACTTCTGT
405253 GTTGCGATTTATAAATTCGC
1 GTTGCGATTTAT-AATTCGC
405273 GTTGCGATTTAT-ATTCGC
1 GTTGCGATTTATAATTCGC
405291 GTTGC
1 GTTGC
405296 TAATTCGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 11 0.48
20 12 0.52
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (19 bp):
GTTGCGATTTATAATTCGC
Found at i:413567 original size:26 final size:26
Alignment explanation
Indices: 413537--413586 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
413527 AAAAACAAGG
*
413537 CTTGAAAA-TAAAAGTAAAATGAAAAA
1 CTTGAAAAGTAAAA-TAAAAAGAAAAA
413563 CTTGAAAAGTAAAATAAAAAGAAA
1 CTTGAAAAGTAAAATAAAAAGAAA
413587 GCTTTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.66, C:0.04, G:0.12, T:0.18
Consensus pattern (26 bp):
CTTGAAAAGTAAAATAAAAAGAAAAA
Found at i:418383 original size:18 final size:18
Alignment explanation
Indices: 418360--418396 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
418350 TAGTAACTTT
*
418360 GGCGAAGTCCCCGGTAAC
1 GGCGAAGTCCCCGGCAAC
*
418378 GGCGAAGTCTCCGGCAAC
1 GGCGAAGTCCCCGGCAAC
418396 G
1 G
418397 ACGACAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.32, G:0.35, T:0.11
Consensus pattern (18 bp):
GGCGAAGTCCCCGGCAAC
Found at i:419254 original size:26 final size:26
Alignment explanation
Indices: 419224--419273 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
419214 AAAAACAAGG
*
419224 CTTGAAAA-TAAAACTAAAATGAAAAA
1 CTTGAAAAGTAAAA-TAAAAAGAAAAA
419250 CTTGAAAAGTAAAATAAAAAGAAA
1 CTTGAAAAGTAAAATAAAAAGAAA
419274 GCTTTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.66, C:0.06, G:0.10, T:0.18
Consensus pattern (26 bp):
CTTGAAAAGTAAAATAAAAAGAAAAA
Done.